First: what kind of tubing did you connect to the detector vent? The little kit from agilent consists of swagelok reducers and a restrictor, that vent gets pretty hot and if a cardboard box doesn't fix it tubing won't help.
From the image you posted, the initial jump in signal is just from opening chemstation right? The instrument has been on for at least a few hours and is equilibrated? A baseline in the mid 20s is mildly suspicious alone if its not still calming down.
Of the things I can think of that cause this problem there are:
- dirty gas/traps (going to evaluate with clean, close by cylinder)
- column bleed (nope)
- leaks (going to evaluate with the direct cylinder connection but when you connect the cylinder go ahead and block off the TCD with a column nut so we can purely test the detector)
- EPC module/proportional valve (checked by you when you tried swapping EPCs)
- supply gas pressure control (probably not the problem since you have other systems on the supply with no problems)
You have pretty much checked out the detector electronics, what about the actual electronic supply to the instrument? Is this on a shared circuit or is it on the recommended dedicated 20 A circuit? (probably not

) Check the line voltage with a multimeter and make sure you are getting 120 VAC stable. If the instrument is sharing a circuit with other stuff and the line voltage is unstable or insufficient try turning some other stuff off while you're testing.
Earlier you say you "switched out the detector," do you mean you replaced the entire detector cell including the filament etc and this is still happening?
One more thing about the sampling rate:
peaks only .01 minutes wide can SLIGHTLY benefit from running at 10 Hz but you should never run at 20.