So Here's my little project. 1987 PF was completely immaculate, like it had never been driven, 700$ with a bad z24 motor. I found an '89 Hardbody 2wd at the local salvage yard, and made the swap. Now it runs perfectly at idle and through the rpms until about halfway (no tach so not sure of the number), but when revved up hesitates, and it's consistent. Cant go over 60 in 5th gear, and every gear has the same hesitation. My worst mistake in the engine swap was not labeling the vacuum lines, and I wonder if my problem is there. I followed a couple of amazing threads on here, (thank you fastboatman!) but none were exactly the same as mine. Here are a few pictures so maybe someone can see where I went wrong, or if there is anything you see that could be causing it.
P.S. The valve in the second and last picture doesn't appear to be supposed to be connected to the vacuum lines on the front of the air cleaner like I have them, but if it is not connected to vacuum, the car idles horribly. Disconnecting it does not change the main issue.