This page will show you all the connections for the mini sequencer: Oberheim MS-1A Mini-Sequencer
Figured it out: The DR 55 and Monotribe were not putting enough trigger voltage to drive the 2 voice sequencer.
Basically the external clock signal I was feeding was not higher than the internal clock, which from the looks of things is I think close to +10 to +15 volts. Since the external clock is switched into the clock path via a NAND gate, the nand gate was not receiving a signal on the second input high enough to switch to outputting the external clock so it kept sending the internal.
The way it should work is, with the correct and powerful external clock signal, you should be able to step the sequencer without flipping the run switch. If you flip the run switch on the mini sequencer, it will return to clocking off of the internal clock ...
Hope that helps somebody out!