Interesting.
In 6.0.8 whenever I picked somewhere to go to the course line (purple line) would seem to guess a starting point close to me (typically an aiport) but the intended track line (blue) would point from me to the newly selected destination.
In 6.5.6 (latest) version as long as I'm moving (in the air) when I pick a new direct to destination (i.e. replacing my existing flight plan) the new course (purple) and intended track (blue lines) are immediately drawn from my current position to the newly chosen destination. This was to my understanding a known issue in 6.0.8. Are you sure you are on the latest version (6.5.6)?
Edit: [One other thought - although I upgraded to 6.5.6 initially I pretty much then immediately updated to 6.5.9 beta for other reasons, so much as 'on-paper' that was to be fixed in 6.5.6. maybe the 'real' fix was in the beta version. I'm not 100% sure if I tired that on 6.5.6. I was having NMEA data issues with that version which is why I went to 6.5.9]?