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Q: transmission not running smooth after clutch slave cylinder replacement on 1993 Ford Ranger

Rookie cbe0621eac06868b3efe0d8d1d3611e23c60d3114864ea2ec19a68cfbd3eebab
replaced slave cyl for clutch, bench bled master. on reinstall of shifter, asst. somehow managed to get the internal trans mechanism off / uncentered at linkage point where shifter pegs into. pulled shifter off, flipped internal parts back to normal, ran fine. now trans is acting like its dragging or otherwise not right. no idea how it could have been damaged or misaligned inside.
(1) Answer
So, you replaced the internal clutch slave cylinder? Did you properly bleed the system? If not, this is very, very important. Other wise the clutch will not disengage and will cause that dragging feeling that you mentioned.