So I've been doing the research and everyone says to eliminate pin A13, the orange wire, and move A14 to A12 Black/Blue. Now my question is, if I do this will it work with the stock ECU Y7? I still have to get the P2P. Thanks.

 

No, the P2E ecu is looking for the 3-wire.

 

So how do I get it to work with the P2E?

 

im a bit confused. your title says 96-98 but the p2e ecu is obd2b (99-00) right? if so then i beleive this is the fix

 

No, P2E is obd2a 96-98.
http://hondaswap.com/reference-mater...cu-list-29129/

 

ok so after looking further it looks like the p2e came in all 96-00 civic dx models so you need to verify if its obd2a or obd2b.
http://www.hondata.com/techecuid.html
the picture shows which plugs are used in a vs b

which do you have?
obd2a - follow the instructions you already have for the a-plug pin swap
obd2b - follow what i posted

 

The title of this thread says 96-98...so its OBD2a.