Ken
I don't think there is a separate adjustment - there is a single release bearing that disengages the travel clutch, which in turn moves to push the pto clutch. The whole stack moves together.
There is a possibility that when the travel clutch was adjusted, it was moved a bit more than needed. To restore the release of the pto clutch, you could try adjusting the travel clutch so there is minimal free play in the pedal. Not so tight the throw-out bearing runs constantly, but so the wasted travel is minimized. Then when the pedal is pushed all the way down, it may disengage the pto clutch better. I had a L345DT that had this issue - I procrastinated for a few years - got to a point where I would shut the tractor off, engage the pto in low or high, and then start it back up. This is not that bad a situation, because with the pedal way down, the pto clutch doesn't really grab all that much - a spinning rotary cutter will not drive the tractor.
The front axle oil is all one volume - there are just two low point drains so it can all be changed.
I'm surprised that the oil seal on the pto shifter shaft can leak that much - the oil level in there is not very high - it must sling it toward the hole just right from the gears. I would not take the housing off for that. To get the oil seal out the manual probably says to take out the shaft from the inside. But it's a zero pressure situation - so I'd just put an o-ring or something around the outside. A tight wrap of several turns of string does a great job on a leak like this. No need to dive deep.