[Kevin Sevcik]

PWM control of a Jaguar should work with no configuration whatsoever. You can do a very limited amount of "configuration" of a Jaguar with jumpers. Specifically, you can set the Brake/Coast jumper and enable automatic ramp mode with the limit switch jumpers.

Brake mode (basically) shorts the motor leads together when you're not giving a command to the Jag. That causes the motor to slow down and resist being turned at any great speed. Coast mode leaves the motor leads "open" which lets the motor spin freely.

Automatic Ramp Mode will ramp your motor command up or down instead of instantly changing it. It works out to 0.125 seconds to go from full forward to full reverse. Which is really pretty fast, but might keep you from blowing up a Jag if you often instantly go from full forward to full reverse. You enable automatic ramp mode by inserting the limit switch jumpers horizontally instead of vertically.

And that's it. Any and all other configuration is only relevant to a team using the Jaguar in CAN mode, because nearly all of the other configuration available is only usable in CAN mode.

EDIT: What exactly makes you or your coach think you're blowing Jaguars due to improper configuration? The Grey Jags could blow from switching rapidly from forward to reverse, the Black Jags are much less prone to this failure mode. The most common way of blowing a Black Jag is by dropping metal shavings in it and shorting it out.