I went through my PayPal account and it balanced but when I went on my main bank account it was then way out.
Now my main bank is balanced and my PayPal account is way out.
I don’t know what to do 
please help me!
The first thing to do would be to reconcile the account. This will help pick up any erroneous or missing transactions.
If you have a bank statement or online banking, then you’re good to go. Just go to the bank statement view in QuickFile, select More Options >> Reconcile.
Start by doing it on a month-by-month basis, and then when you find the earliest month that doesn’t match, narrow it down further.
Let us know how you get on 
Hi bespokebyhowley,
This sounds like the paypal feed settings for bank transfers may need ticking for:
Ignore transfers to or from bank (prevents duplication) [?]
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