Sounds like you're up and running ok now . Relays can be a pain to troubleshoot and as they approach 20+ years old can get a little burn or corrosion on the contacts. Most of the relays can be carefully removed and then taken apart for inspection of the contacts and then can be troubleshot using a FSM.
More than once , I have seen the "circuit opening switch" cause the symptoms which you described.

85' 4x4 e-cab flatbed 22r carb ((SOLD))
86' 4runner, 22re , "60 buck truck"
95' 4runner, 22re,5sd, last of the good ones
02' Tacoma prerunner, 2.7L, 5spd., 4x4