If you pull the pan and find that the filter is plugged, you are wasting your time and money putting the pan back on. If you plug a filter in a Torque flight trans, you have some serious problems. Since the valve body sits in the pan on that trans, it is highly unlikely that the filter being off would cause you any real problems. Have had several fall off when the pan was removed. They were driven in the shop for PM services. I would be more inclined to believe that there is something mixed with the trans fluid or the level is actually too high. Check the fluid with it warm and trans in neutral, not park. You might try a different dip stick, if you are not sure if it is the original.
As I have stated numerous times before. Changing the fluid and filter, by itself, will not correct a trans problem. That is unless the only problem is low or high fluid level. It is about the same as changing the engine oil because it won't run, or knocks.