It will not at the onset. I have not yet programmed in support for manual waypoints of that format...PBD, LL, etc. I don't think it will be difficult to do so, but I'm not on that task at the moment, plenty in front of it. Once I do get that put in though, I would suspect that adding support for that type of point should be doable.
And as far as PFPX goes, I think it supports *.flp format (not *.fpl)...which is a format we do read in. In fact, I think someone asked the question of supporting PFPX some time ago that caused us to want to import multiple file formats.
There is no format that we could not probably write a importer for; however, some formats are just too verbose for us to want to even try.....and many formats encode the waypoint data within the file itself whereas we rely on just the names, that is 'what you would type into the CDU'. You give us names, we pull the data from our database and build the route, etc. The ideal format is *.fpl IMO.
-tkyler