Brian, are you doing anything else on the laptop at the time this is occurring or is it purely acting as a music player? Also how long is your USB cable and have you changing it lately?
The only times I have encountered stuttering play on a laptop are as follows;
Long USB cable (3m)
Poor quality USB cable
Playback via a NAS whilst doing other things on the network
Screen-savers or power management kicking in - even the display blanking has induced a very short break in play.
Using a mouse
TBH I don't believe a fragmented file would cause this.
Are you able to monitor the laptop to see if there are any clues and does the HDD activity light operate at the time you get break up? As John has outlined the likely cause is that Windows is doing something else in the background. I would open up the Task Manager and monitor the CPU activity and see if you get spikes at the same time as the breaks? If the hardware is working the cause is more likely going to be a software issue and some sort of conflict or lack of system resources.
How much RAM has the laptop and how much is being used during playback, also what's the normal CPU activity? These can again be checked in Task Manager by right clicking the taskbar. Click the performance tab and you should see a Window like this one:
It will be slightly different, as this is from Windows 7, but you should suss it out. If you know how to do all this already, please excuse me.
Finally, what else is installed on the laptop that is likely to be running at the same time - can you let us know what's in the system tray, i.e. the small icons located at the bottom right of the task-bar near the clock?
Try John's suggestions too and report back