There there's a baby rainbow, Nick.
I know what you mean about the indicator causing its own set of problems. But -- the benefits can often outweigh the problems. If you're in fairly fast water and find the indicator dragging, make a series of little mends as needed to keep the indicator moving with the current. Try to be gentle with them, and keep in mind your doing this for the fly, so visualize what effect you're having on it. If you throw in a mend and it jerks the indicator -- well, you've also just disrupted the fly's drift below.
Sounds like you were fishing in one of the Parks?
As for not getting them landed -- don't let there be any slack in the line, but also don't pull too hard. You know, just right First off, keep the slack out of the line while your fly is drifting. As the fly moves past you'll want to lower your rod tip to give it the extra line it needs to continue downstream without dragging. If you can flick your rod tip to feed some line out, all the better.
If you get a strike, lift, but don't jerk, to set the hook. Immediately get any slack out of the line. I usually do that by stripping in, rather than cranking. It's quicker and let's me assess what I've got on the end before I commit to the reel and the drag.