[3] The season was suspended on March 11, three days after its opening ceremonies, due to the COVID-19 pandemic and the enforcement of the enhanced community quarantine in Luzon.

All games were played in the "PBA bubble" in Angeles City, the isolation zone specifically created for league operations.

On March 11, hours before Rudy Gobert tested positive for COVID-19 (causing the NBA to suspend its season), the PBA Board of Governors postponed the games of the Philippine Cup due to the COVID-19 pandemic and the enforcement of the enhanced community quarantine in Luzon.

[35] After the Enhanced Community Quarantine (ECQ) in Metro Manila and nearby provinces was extended until May 31, the Board of Governors have decided to set a deadline on August if the season will still be continued with a single tournament or if it will be cancelled.

[36][37] On July 3, the Inter-Agency Task Force for the Management of Emerging Infectious Diseases (IATF-EID) announced that training for professional basketball and football are allowed after the PBA and Philippines Football League, together with the Philippine Sports Commission, Games and Amusements Board and the Department of Health, drafted guidelines for training for areas under General Community Quarantine (GCQ) and Modified General Community Quarantines (MGCQ).

[40] The planned player swab testing and resumption of team practices were postponed after Metro Manila and its surrounding provinces were put under Modified Enhanced Community Quarantine (MECQ) on August 3 due to the surge of COVID-19 cases.

[41] After Metro Manila returned to General Community Quarantine status on August 19, player swab testing was immediately done.

The Araneta City in Cubao, the Inspire Sports Academy in Calamba, Laguna and the Clark Freeport Zone in Pampanga were considered as venues for the PBA bubble.

The games will be played at the Angeles University Foundation gymnasium while the players will stay at the Quest Hotel inside Clark.

[45] The league also decided to retain the results of the San Miguel Beermen's 94–78 win over the Magnolia Hotshots on March 8, 2020; the only game played prior to the suspension of the Philippine Cup.

[48][needs update] On October 30, 2020, the league announced through their social media accounts that the games will be postponed to ensure the integrity of the PBA bubble and until the new protocols set by the IATF-EID and the Department of Health are in place.

[49][50][51] The following day, the PBA announced that they will resume its games on Tuesday, November 3 after the IATF-EID issued the following new guidelines: A quarantine facility will be set up within the Clark bubble for future COVID-19 positive cases.