COURT OF TAX APPEALS (CTA) DECISIONS
IN VAT REFUND CLAIMS, WHERE THE CIR FAILS TO ACT WITHIN THE 90-DAY PERIOD, THE CLAIM IS DEEMED DENIED AND MUST BE APPEALED WITHIN 30 DAYS; SEE DISSENTING OPINION. The CTA has jurisdiction over decisions and inaction of the CIR involving VAT refund claims, and the CIR’s failure to act within the prescribed 90-day period constitutes a deemed denial, which must be appealed to the CTA within 30 days from the expiration of such period; applying these rules, the CIR failed to act within the 90-day period, which expired on October 13, 2020, such that the taxpayer had until November 12, 2020 to file its judicial claim, and the subsequent VAT refund notice issued beyond the 90-day period did not revive or extend the appeal period, rendering the Petition for Review filed only on November 20, 2020 late and depriving the CTA of jurisdiction. Dissenting opinion: The TRAIN Law did not eliminate the taxpayer’s right to appeal either the CIR’s inaction or a denial issued after the 90-day processing period. The TRAIN Law deleted the language referring to inaction and shortened the processing period to 90 days; however, CTA Charter continued to expressly grant the CTA jurisdiction over CIR inaction. A taxpayer could still either appeal the CIR’s deemed denial within 30 days after the lapse of the 90-day period or wait for the CIR’s actual decision and appeal within 30 days from receipt, even if the decision was issued after the 90-day period. [Franklin Baker Company of the Philippines v. CIR, CTA EB No. 3025 (CTA Case No. 10407), February 10, 2026]
A TAXPAYER CLAIMING A CWT REFUND MUST PROVE THAT THE INCOME PAYMENTS SUBJECT TO CWT WERE INCLUDED IN ITS GROSS INCOME. The Court generally cannot consider evidence that was not formally offered, and even when this rule is relaxed, the evidence must have been identified through testimony and incorporated into the record; applying this rule, the taxpayer failed to prove that the income payments subjected to the claimed CWTs were included in its gross income because its AITR, AFS, and GL reflected a discrepancy, and it did not adequately reconcile the difference or trace the income payments reported in the SAWT and CWT certificates to the revenues declared in its AITR. Although the taxpayer presented reconciliation tables attributing the discrepancy to accounting adjustments, revenues not subjected to CWT, and timing differences, these were presented for the first time on appeal, were not testified to by its witnesses, were unsupported by specific evidence, and were not evaluated by the Court in Division; hence, they constituted mere allegations that could not establish entitlement to the claimed CWT refund. The Court likewise emphasized that the findings of the Court-commissioned ICPA were not conclusive and could not relieve taxpayer of its burden to independently substantiate its refund claim. [Ford Group Philippines v. Commissioner of Internal Revenue, CTA EB No. 3026 (CTA Case No. 10507), February 4, 2026]
ONLY A FINAL DECISION OR INACTION OF THE CIR OR A DULY AUTHORIZED REPRESENTATIVE IS APPEALABLE TO THE CTA; AN RDO’S LETTER IS NOT AN APPEALABLE DENIAL SINCE HE IS NOT CONSIDERED AS AUTHORIZED REPRESENTATIVE. Only a decision or inaction of the CIR, or of a duly authorized representative acting pursuant to a valid delegation of authority, is appealable to the CTA; although the CIR may delegate the authority to decide refund claims to qualified subordinate officials, such delegation must comply with the applicable rules, which provide that VAT refund claims are processed by the RDO but their approval or denial must be made by the Regional Director or the appropriate authorized official. Applying these rules, the letter issued by RDO and received by the taxpayer was not an appealable decision because an RDO, acting alone, lacked authority to finally deny the refund claim, and the letter itself did not convey a tenor of finality, stating merely that the taxpayer failed to prove its entitlement to the refund and providing the information for its guidance. The actual appealable denial was the subsequent letter signed by Regional Director, categorically denying the VAT refund for lack of legal and factual basis; however, the taxpayer had already filed its Petition for Review before receipt of the authorized denial, making the CTA petition premature and depriving the Court of jurisdiction. [Firmenich (Philippines), Inc. v. Commissioner of Internal Revenue, CTA EB No. 2992 (CTA Case No. 10209), December 15, 2025]
A FACILITY CONDUCTING BUSINESS IS CONSIDERED AS A BRANCH, WHICH IS REQUIRED TO BE VAT-REGISTERED FOR INPUT VAT REFUND PURPOSES. Every person subject to internal revenue tax must register with the appropriate RDO before commencement of business, and every separate or distinct establishment or facility where sales transactions are conducted must be registered as a branch and subjected to the corresponding annual registration fee; this registration requirement is likewise a prerequisite to being considered a VAT-registered person entitled to claim an input VAT refund. Applying these rules, although the Palawan Facility and Technopoint Facility were denominated as facilities, the taxpayer generated sales of call center services to, thereby making the facilities branches for VAT registration purposes; however, the taxpayer failed to register them as branches and pay the corresponding annual registration fees on or before the sales transactions occurred. Consequently, the taxpayer was not a VAT-registered person during the period covered by the refund claim [Foundever Philippines Corporation (formerly Sitel Philippines Corporation) v. Commissioner of Internal Revenue, CTA EB No. 2942 (CTA Case No. 10200), December 18, 2025]
A TAXPAYER CLAIMING AN EXCISE TAX REFUND MUST SUFFICIENTLY IDENTIFY AND TRACE THE PETROLEUM PRODUCTS SOLD TO TAX-EXEMPT ENTITIES TO THE PRODUCTS ON WHICH THE EXCISE TAX SUBJECT OF THE REFUND CLAIM WAS ACTUALLY IMPOSED AND PAID. The taxpayer bears the burden of substantiating its entitlement by competent evidence establishing a clear nexus between the excise taxes paid and the petroleum products subsequently sold to tax-exempt entities; moreover, the Court is not bound by the findings of the ICPA, and evidence submitted to the ICPA does not constitute evidence formally offered before the Court. Applying these rules, the taxpayer failed to establish that the bunker fuel oil (BFO) and special fuel oil (SFO) sold to tax-exempt entities were the same petroleum products on which it paid excise taxes, as it did not submit the Official Registry Books (ORBs), complete and properly supported fuel-oil inventory records, and all relevant sales invoices; the missing invoices further prevented the Court from tracing the inventory using the first-in, first-out method. The Court also rejected petitioner’s claim that the ORB requirement was introduced later, noting that ORBs had previously been utilized in jurisprudence and tax refund examinations, and held that the taxpayer could not rely on its submission of the ORBs to the ICPA because such submission was not equivalent to a formal offer of evidence before the Court. [SL Harbor Bulk Terminal Corporation v. Commissioner of Internal Revenue, CTA EB No. 2982 (CTA Case No. 10320), December 23, 2025 and CTA EB No. 2981 (CTA Case No. 10440), February 2, 2026]
LACK OF DESCRIPTION IN INVOICE WARRANTS THE DISALLOWANCE OF INPUT VAT REFUND; CROSS-REFERENCING TO BILLING STATEMENTS IS NOT SUFFICIENT. Admissibility of evidence must be distinguished from its probative value, and a taxpayer seeking an input VAT refund bears the burden of proving its legal and factual entitlement through sufficient, competent, complete, and legible evidence; moreover, strict compliance with VAT substantiation and invoicing requirements is necessary because the VAT invoice or official receipt serves as the primary evidence of creditable input VAT and ensures an accurate audit trail. Applying these rules, although the taxpayer’s physical copies of the official receipts were admitted in evidence, the scanned copies submitted for the Court’s appreciation were blurred and unreadable, preventing the Court from properly examining and verifying the input VAT credits claimed; hence, their admission did not establish their probative value. The taxpayer likewise failed to comply with the requirement that VAT official receipts for services indicate the nature of the service, and its admission that the subject ORs lacked such description could not be cured by identifying the suppliers or cross-referencing billing statements and invoices, since other documents cannot substitute for the required VAT receipts themselves. The Court further held that the principle of VAT neutrality cannot override the NIRC’s mandatory invoicing and documentary requirements, which are substantive requirements rather than mere technicalities. [Commissioner of Internal Revenue v. New York Bay Philippines, Inc., CTA EB Nos. 2915 & 2916 (CTA Case No. 10417), December 2, 2025]
Defective verification is not fatal and may be corrected or dispensed with when warranted by the circumstances, while a defect in the certification against forum shopping is generally not curable by subsequent submission unless there is substantial compliance or special or compelling circumstances; applying these rules, the Court found substantial compliance because the petitioner expressly explained that it could not initially submit the authenticated documents due to distance and time constraints and subsequently filed the Apostilled Verification and Certification of Non-Forum Shopping and Director’s Certificate as soon as these were secured, thus satisfying the mandatory purpose of the requirements without unduly rigid application that would defeat the orderly administration of justice [Commissioner of Internal Revenue v. Grid Solutions (US) LLC., CTA EB No. 2814 (CTA Case No. 10146)]
DOE REGISTRATION IS REQUIRED FOR ZERO-VAT SALE ON SALE OF ELECTRICITY GENERATED FROM RENEWABLE ENERGY SOURCES. Sales of electricity generated from renewable energy sources may qualify for 0% VAT, but the incentive is subject to the statutory and regulatory conditions imposed on Renewable Energy Developers, including registration with the DOE, and the taxpayer must still prove through competent evidence that it actually made zero-rated sales; applying these rules, the Court held that the taxpayer’s reliance on the NIRC alone was misplaced because R.A. No. 9513 is a later and special law specifically governing fiscal incentives for RE Developers, and its express repealing clause and IRR require an RE Developer to secure DOE registration to qualify for the incentives, including VAT zero-rating. Although the taxpayer submitted a BOI Certificate of Registration, it failed to timely present the required DOE Certificate of Registration, which it attached only to its Motion for Reconsideration; evidence that could have been presented during trial but was belatedly submitted without justification constitutes forgotten evidence and cannot be admitted on appeal. More importantly, even assuming the taxpayer could qualify for the incentive, it still failed to prove the actual existence of zero-rated sales. Its Quarterly VAT Return reported no zero-rated sales; its AFS and AITR showed only interest income and no operating revenue from electricity generation; and taxpayer itself admitted that it had no recorded sale of electricity because it only began generating electricity in the subsequent year. Its subsequent reliance on its later AITR was likewise insufficient because the return merely reflected aggregate revenue without identifying the nature of the transactions or establishing that they were zero-rated sales. The official receipts submitted for the first time before the Court En Banc were also inadmissible forgotten evidence because they had not been formally offered during the proceedings before the Court in Division and no justification was given for their late submission. [YH Green Energy Incorporated v. Commissioner of Internal Revenue, CTA EB No. 2995 (CTA Case No. 9784), February 10, 2026]
NON-RESIDENT FOREIGN CORPORATION’S SALE OF SHARES IN A DOMESTIC CORPORATION IS EXEMPT FROM CGT IF DOMESTIC CORPORATION’S PROPERTY AND EQUIPEMENT DOES NOT EXCEED THE 50% THRESHOLD. A claim for refund of erroneously or illegally collected taxes must be supported by timely administrative and judicial claims, and the claimant must establish its right to the refund, including the specific legal basis for any claimed tax exemption; applying these rules, the taxpayer established its entitlement to a refund of the CGT paid on the sale of domestic company shares because RP-US Tax Treaty grants the exclusive taxing right over gains from the sale of shares to the seller’s country of residence, unless the shares represent an interest in a corporation whose assets principally consist of Philippine real property, and the domestic corporation’s financial statements showed that its Philippine property and equipment well below the 50% threshold; the Philippines had no taxing right over the capital gain, and the statutory taxpayer/seller had standing to claim the refund. [Commissioner of Internal Revenue v. Grid Solutions (US) LLC., CTA EB No. 2814 (CTA Case No. 10146)]
REVENUE ISSUANCES
BIR RMO No. 22-2026, August 24, 2026
The BIR prescribes the consolidated and revised policies, guidelines and procedures for the BIR audit program
- Taxpayer (TP) is subject to only 1 Letter of Authority (eLA) for a given year covering all applicable internal revenue tax type
- Audit shall be system-assisted, risk-based. TP identity remained concealed during the selection and assignment stage to ensure impartiality and prevent undue influence.
- Mandatory cases:
- Suspected fraud such as declaring 30% less income or 30% more expenses;
- TP identified through specific industry knowledge, data from third parties, or publicly accessible information;
- TP previously under a Mission Order where preliminary findings show a 30% or greater understatement of sales;
- ONETT where findings resulted in tax deficiency or real property transactions with findings in the eCAR system (should be limited only to a specific ONETT and conducted by the investigating office which issued the eCAR and which has proper jurisdiction; if eCAR is used by the office which has no jurisdiction, referral to the appropriate office to be made and corresponding eLA is used)
- Using tax exemptions or special incentives;
- Non-compliance with tax obligations arising from Spontaneous Exchange of Information (EOI);
- ТP requesting for tax clearance whose gross sales for the immediately preceding year exceed Php3M or gross assets is more than Php8M, due to:
- Death of the taxpayer; or
- Taxpayers retiring from business
- Taxpayers undergoing merger/ consolidation/ split-up/ spin-off and other types of corporate reorganizations
- TP who failed to respond to Third Party Information (TPI) request
- TP with validated discrepancies or material inconsistencies identified through the system.
- TP with refund claims
- Mandatory cases do not require CIR’s approval. Approving authority is regional director or ACI R for LTS; Effect of misclassification – administrative sanction
- Taxpayer enjoying tax exemptions or incentives is not automatically subjected to audit, and subject to risk-based evaluation
- Failure to respond to request for confirmation of TPI data matching within the period – TP shall be subject to mandatory audit
- For refunds of income tax under Section 58 (e) and 76(C), LOA and TVN will be issued
- Service of LOA requires First and Second/Final notice if taxpayer fails to comply within 10 days
- Place of examination – place of business or BIR office; if documents are voluminous or transport or examination at the BIR would be impractical, burdensome or disruptive to business operation, TP has option on the venue and manner of examination; TP consent on audit venue to be accomplished
- If at BIR office – taxpayer may opt to physically submit the BIR records
- If principal place of business – TP to coordinate with RO; TP shall provide suitable area
- Photocopies may be accepted; TP or authorized representative must certify that the documents are true and faithful reproduction of the original. BIR may require presentation of original for solely for verification.
- SDT – no option for venue; venue is BIR office specified in the SDT
- Minutes of Meeting after NOD is issued are required
- Prescriptive period suspended – when issuance of SDT or EOI BIR is requested; effectivity date: upon date of receipt of request by concerned office; to resume when BIR officer receives the requested information
- Termination Letter – to be prepared for all paid cases or cases with no findings or discrepancies; issued by Regional office; LTS, HREA-EAS;
- Priority cases (electronically selected based on risk-based criteria; uses the data from filed tax returns and other information in the BIR system)
- Drastic decrease in reported sales or VAT payments
- Large increases in sales that are zero-rated or exempt from tax
- TP with Discrepancy Notices
- Differences between current VAT filings and what was carried over from previous months
- Claiming input VAT that cover more than 75% of the total output tax
- Paying income tax that is less than 2% of the gross sales/revenues
- TP filing percentage tax returns exceededing the VAT threshold
- Reporting a net loss despite having substantial sales
- Operating for more than five years without ever being audited
- Taxpayers with increase in assets of more than 50% from the previous year but with reported net loss
- Claims for damages from natural disasters or for old inventory
- Getting almost all income from a parent company or affiliate
- Taxpayers claiming write-off of input tax as allowable deduction in its annual income tax
- Sharing expenses between different branches or companies in a group.
- Recommendations by the heads of investigating office must be supported by written justification. IT shall include the audit selection criteria; subject to approval of the CIR upon recommendation of the DCIR-OG, DCIR-SRG before the eLA is issued
- Effectivity: immediately (august 24, 2026)
BIR DEADLINES FROM AUGUST 24, 2026 TO AUGUST 30, 2026. A gentle reminder on the following deadlines, as may be applicable.
| DATE | FILING/SUBMISSION |
| AUGUST 25, 2026 |
SUBMISSION – Quarterly Summary List of Sales/Purchases/Importations by a VAT Registered Taxpayers – Non-eFPS Filers. Fiscal Quarter ending July 31, 2026
SUBMISSION – Sworn Statement of Manufacturer’s or Importer’s Volume of Sales of each particular Brand of Alcohol Products, Tobacco Products and Sweetened Beverage Products. Fiscal Quarter ending July 31, 2026
e-FILING & PAYMENT (Online/Manual) – BIR Form 2551Q (Quarterly Percentage Tax Return). Fiscal Quarter ending July 31, 2026
e-FILING & PAYMENT (Online/Manual) – BIR Form 2550-DS (Value-Added Tax (VAT) Return for Nonresident Digital Service Provider) – Fiscal Quarter ending July 31, 2026
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| AUGUST 29, 2026 | e-FILING & PAYMENT (Online/Manual) – BIR Form 1702Q (Quarterly Income Tax Return For Corporations, Partnerships and Other Non-Individual Taxpayers) and Summary Alphalist of Withholding Taxes (SAWT). For the Quarter ending June 30, 2026 |
| AUGUST 30, 2026 |
SUBMISSION – Proof of eFiled BIR Form 1702 – RT/EX/MX with Audited Financial Statements (AFS), 1709 (if applicable), and Other Attachments through Electronic Audited Financial Statements (eAFS) or Manually. Fiscal Year ending April 30, 2026
SUBMISSION – Soft Copies of Inventory List and Schedules stored and saved in DVD-R/USB properly labeled together with Notarized Sworn Declaration. Fiscal Year ending July 31, 2026
e-SUBMISSION – Quarterly Summary List of Sales/Purchases/Importations by a VAT Registered Taxpayers – eFPS Filers. Fiscal Quarter ending July 31, 2026
ONLINE REGISTRATION (thru ORUS) – Computerized Books of Accounts and Other Accounting Records. Fiscal Year ending July 31, 2026
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