how old is the ATF? - the transmission holds 7 litres of ATF and if its dirty, you are in for big trouble because you cannot replace or clean the ATF filter in this gearbox, Complete disassembly of transmission is required.
The ATF for this gearbox is plain old Dexron 3 which is also known as aatometick gheyr aail, make sure the package does not say Type A or Type F on the bottles. It should say Dex/Merc or Dexron clone.
Also keep in mind that civics/accords etc of these years have bumpy shifts, they do not have the ultra smooth shifts of later model gearboxes. Bumpy shifts means you experience a slight jerk at each ratio change.