OK, since I have just recently bought a new charger (two days ago) I was charging my 3000 HV's with the same charger you are with H27 software.
Here is what I have done.
I have charged at around 6.5 amps for punch in stock, but your requirements are different.
Charge LINEARE, no proflex, on P or P2 or CS....It doesn't make much difference when you do this......
Discharge the cells first at 20 amps to get them low, around 1 volt per cell. This way you know they are discharged.
Start charging and watch the mAh rating on the charger.
I have generally MANUALLY stoped charging when the pack becomes a little warm or at 2500 mah for stock and 2600-2700 for mod. This way they don't get overcharged which is the main enemy of NiMH. Also, they seem to have more punch this way because the internal resistance of the batteries don't go up, which is why the peak voltage rises. Since you need run time in 1/12 mod, try going with a 4 amp charge, but always bring the cells down first otherwise you don't really know how much they can take (mah).
For storage, don't discharge the cells after running, and if they are DEAD, give them about ten minutes of charge before storing.
Next time before you charge, bring them down as I have discussed.
You don't want to let the charger cut off automatically because it was really designed for NiCD so they will be getting a little overcharged. That is why you cut off manually>