Three-Point Edit Missing Frames

Hello,
So I am exerpiance a very stange problem, with a very simple operation, and I have no idea why this is happening. I am using a three-point eidt to cover some heavy breaths in a voice over. I have 20 seconds or so of roomtone loaded into my source viewer. The roomtone has an in point a few frames in (to leave room for a transition) and no out point. On my timeline, I create an in and out point, around the audio I want to cover. The gap I am covering is usually only a few frames, a quick inhale, or weird mouth noise. I have done this, many times no problem.
Today, everytime I overwite to replace the audio on the timeline, the clip is a few frames short of my selection. So, for example, I have a 14 frame selection in my timeline. When I overwrite, PP is only placing 11 frames from my roomtone clip. Again, roomtone is over 20 seconds, loading in the source viewer with only an in point. Timeline as both in and out point, so it's a proper three point edit setup, and the is way more then enough material to cover the selection.
If I have to roll out every clip I cover, it's going to be a long day, so any help would be apperciated. I am using Premeire Pro CC (Version 7.2.1) on a Mac (OS X 10.9.1). I have uses these exact versions before, and not had this issue.
Thanks,
J

This has been a challengeing little problem for me. Each time I think I have norrowed it down it crops back up. That being said I have come up with a work around, that is working consistently. I thought I  would share it, incase someone else has the same problem.
The room tone clip I use has video, but normally, don't patch it to the timeline. I noticed that when I did patch the video in, the correct number of frames where placed on the timeline. So I added an extra track above all the others, turned visibility for that track off, and patch the video there. When I was done with that sequence, I simply deleted the extra track.
Still not as good as an actual fix, but much less time consuming then having to adjust each edit.

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