It helps that the probes are high impedance to ground, so they're not as affected as the pulldown on the button. I saw a theoretical difference of about 10F, however, because the probes are 8-sample averaged, the average disparity you'll see is closer to 1F.
After four nights of experimentation, trying various decoupling methods, and comparisons to v4.0 (which shows noise on the order of 2-4) it seems the quickest fix is to move the ground feed point. After moving the ground input, my test system (on a Model B Pi) dropped to
Idle: 0
5% blower: 0 when off, 4 when on
10% blower: 4
50% blower: 2
100% blower: 0
I'll make another thread about it but here's how to move the ground. Step 1: Remove the barrel jack and cut the 4 connections to the ground plane with a razor. You don't have to be gentle, just look and see the 4 shiny lines going in each direction and score them.
Step 2: Check continuity between that hole and any pin labeled Gnd (probe header or FTDI header, etc). You should get nothing.
Step 3: Resolder in the barrel jack and run a wire from the pin where you just cut the leads to the center pin of the 5V regulator. The regulator creates a good deal of noise itself due to driving the Pi.
Model A Pis have less noise than Model B and they're $10 cheaper to boot.
My test setup has 2x of the standard blower. Using my lab power supply with the modified configuration, I got 0 noise at any blower percentage. However, I found it interesting that two blowers rated at 0.2A each pull greater than 1A combined (in pulses) when running at low speeds.