In the COVID era people are working from home as much as possible. With less need for commuter passes, people are either not purchasing them or buying short term one month passes. The situation is unpredictable and can change if the Japanese or local government declares a state or emergency. JR East posts Mobile Suica system notices on a regular basis for canceling a Mobile Suica commute plan and getting a refund. The Mobile Suica support page only covers the process in Japanese, here it is in English. Other Apple Pay Suica Commute Plans options are covered in the guide.
Cancel and Refund Apple Pay Suica or PASMO Commute Plan
To cancel your commute plan and get a refund before the expiration date, you must have a Mobile Suica account and Suica App. Refund of a current plan costs an upfront ¥220 processing fee. The refund amount is calculated on how many valid days are left before expiration. If too close to the expiration date you won’t get a refund. Follow the screenshots below for a refund. Note that refunds are made back your to Apple Pay credit/debit card used to purchase the commute plan. The commute plan is invalidated immediately but you can still use it as a regular Suica for purchases and transit. You can also purchase a new commute plan for the Suica at any time with Suica App.

Tap Suica Menu 
Tap Commute Plan 
Tap Mobile Suica Commute Plan 
Tap Refund (Harai-modoshi) 
Tap Continue 
Confirm your refund amount info then tap ‘Refund’, therefund amount is returned to your Apple Pay card
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