The first place to check is your Stripe asset general ledger account. Online donations get deposited there, and a few days later Stripe will initiate a real-world transfer to your checking account and create a transfer record in CommunitySuite. If you see a transfer that puts the Stripe general ledger account negative, you are missing something (unless you recently processed a refund). Check Stripe.com to find the missing payment. Look for the dates in the balance from the Stripe account. If you see the balance going to zero, then after a transfer it drops to negative, check the dates during that period. Compare the payments at Stripe.com to your payments into the Stripe general ledger account.
Example: Stripe transferred $50 more into my checking account than I have in donations. I would then search stripe.com for payments of the missing $50 charge.
You identify there is a missing donation, and you want to know the fund
Log into your stripe.com account and find the payment in stripe.com.
Click on the Payment Intent Code which will bring you to the record which has details of what was purchased.
Create a donation to the funds listed, use the date of the transaction or Sell Ticket to the event listed if the transaction was for an event created in CommunitySuite.
On the Till page, reconcile the Other Payment by deducting the fees Stripe charged and deposit on the purchase date in your Stripe general ledger asset account. This will process like a normal online donation.