Well, there are different kinds of CD audio "drop outs." One is where the music track currently playing just stops. This isn't a cap issue, this is because the laser loses track of where it was and just stops playing. If you reach a point in the game where new music track is supposed to play (such as the next level, a boss fight, etc), the player will spin up again and try to play the new song. Usually this means the CD audio returns at this point. Causes for this:
a) Lasers get old and in turn, get weak.
b) You are using a media with a lower reflectivity, such as (gasp) CD-Rs.
c) You bump the system or the system is exposed to some kind of shock while playing.
So in your case it may be a combination of both A and B and possibly even C.
The other kind of drop out is in fact caused by capacitors, and in that situation all CD audio will stop but the player itself is technically still playing the music. Reaching a new level with new music won't cause the CD audio to resume, but with the cap issue, sometimes the audio will come and go randomly.
We need to determine which kind of drop outs you are experiencing.