1. RecentX will pick it up only when you open those converted PDF documents. Not sure how Capture Perfect works. Basically, all other programs use standard ways of opening document etc. If Capture Perfect doesn't follow standard ways then RecentX will not be able to pick it up. Capture Perfect must add the opened PDF document in Windows "Recent Documents" so that RecentX can pick it up.
2. If you open via Word, RecentX will know about it only after you close Word. Also, when you open another document also, the first one should show in RecentX .