the ck eng lamp indicates a problem that currentley exists if it wont clear by disconnecting the batt.
I have pinched the intake gaskets several times putting back the manafold , usually throws a code p0171 lean or p0174 , possibly a p0300 through p0308 misfire , if you retouched all the connecters you removed then you should look and see what the code is as this will shorten your span of failures ,
as a side note it is common to have it idle poor after it has run for a few months/years and having the batt go dead
fix for idle is
this happened to me a few times at work , You need to pull the throttle body off and clean out the black gunk from around the throttle blade , or the quick fix is to pull the air intake off and open the throttle manually and with a rag and brake/carb cleaner clean around the blade as best as you can ,, while performing this have the batt disconectd ,
Over time carbon builds around the blade and changes the air flow past the blade. in small amounts the ECU will then compensate and pull the throttle open to the correct flow spot , it will go to that spot untill the throttle is disconnected or the batt is disconnected or the ecu is reset .
Then when it wakes up it goes to its first factory program ,, Which will be incorrect due to the build up , and will idle low ,,,,, and or high ,, depends on the factors involved ,
just replaced one this morning that when started went to 1100 rpm untill it was reset .
Hope it helps
Fj55-100