You're pretty much into GM fiat territory here mate.
As soon as you're running a host on an RCC you're way off the rulebook.
-I'd say cybercombatting the Agent would be fine, or a TM could decompile it at a stretch
-realistically why would a bomb be on the matrix? by RAW, you could just brick the bomb with data spike. destroy the electronics and you stop the ignition process. say on a crit glitch the attack code sets the bomb off? :-)