I'd say yes, I don't have mine hooked up and I don't have a tune. I'm sure I'm throwing a CEL, but the bulbs taken out. I'm almost positive if you have it deleted there shouldn't be a problem, but when you say you have no egr, do you mean you blocked it?, or you plugged a hose?, or you took the whole egr out? Cause if there is nothing hooked up to those hoses, which there shouldn't be, I'd say take it out.
But I'm no expert.