Documenting payments made outside of Sage 300 to vendor information

SOLVED

I'm not sure if this will make sense, so please bare with me. 

I made a payment with our bank via ach to pay for a larger invoice. Is there a way to document this invoice in sage 300 and mark it as paid so that it reflects on the vendor profile? We don't have the bank info set up; we print checks exclusively through sage. I just want to be able to see in the future that this invoice was paid but not have to physically print a check. We have always just ended up creating a JE to document all credit card and ach payments, but they don't reflect in already set up vendors, so we have to do some digging in different places to see if particular things were paid. 

I hope this make sense. Please let me know if there is anything that should be clarified better!