Great discussion here! JediUnit is DA MAN
Ironically, both SARK and DILLINGER were slaves of their own impulses (read: individual ambitions). Both of them didn't feel so confortable with MCP's distructive philosophy, but they were *SHEEPS* (or *COW*, if you like) that truly use to follow the best maverick in town just in need to survey. They're gamblers, nothing more, nothing less. They knew how to accomplish their purposes (not necessarly bad) --- still, they can see the line between "good" and "evil" so much clearly, but they're simply too much scared and careful for themself to renegade their own impulses in the safe of their next.
JediUnit:

really saved our world too. He was not only the hero of the Electroverse.

was absorbing "external Programs" who occupied important roles in the World strategy. Pratically, the MASTER CONTROL PROGRAM would be seen as SKYNET's elder brother ("THE TERMINATOR" was released in 1984).
MCP was dangerous as hell! There is no chance to see it through a new pair of sunglasses

.
Alan didn't like Flynn. I think there was too much between distinction, envy, jealousy (for Lora) between them. Alan was interested in rescuing TRON, that's why he helped Flynn. I think Flynn wanted just to "savage" his fathership on the Programs he wrote --- of course they were planned to be ENCOM from day one. No doubts.
Flynn was honest. Don't forget he became ENCOM's big boss, so I think he cared for the company.
As for ED DILLINGER... he's still matter of hit-and-miss.
Greeting, Programs !!!!!!!!!