For a tiny particle or spot:
* Dot
* Fleck
* Mote
* Grain
* Particle
* Atom (figuratively)
* Grit (if it's rough or abrasive)
* Scum (if it's on a surface)
For a small amount:
* Trace
* Hint
* Whiff (for a smell)
* Dash (for a liquid)
* Pinch (for a solid)
For a small blemish or imperfection:
* Flaw
* Blemish
* Defect
* Mark
To give you the best word, please tell me:
* What is the speck made of?
* Where is the speck located?
* What is the overall context?