If he has vibrations now, he'll obviously have them afterward if he doesn't turn them. But if there is no vibration present, merely changing pads is not going to produce this problem. Pulse (I believe you're referring to) is rotor runout, which is a seperate issue caused by insufficient heat dissipation. Worn pads CAN cause this, but the two aren't joined at the hip.
And NEVER open the system unless you absolutely have to! There is NO such thing as "brake fluid contamination", unless you or someone else dumped anything other than brake fluid in your reservoir. I can't tell you how many times I've heard people say that "Midas told me my brake fluid was contaminated, and I needed my calipers rebuilt, yada-yada...". BS!
Now, if you've "boiled" your fluid, you might need to change it out. That takes ALOT of abuse.
Also, how many miles on these rotors, or should I ask have they been turned once already? You may not have enough material left to safely turn them.