I'm afraid Ra is right: The focal length does not have influence on the beam intensity, and he already proved it experimentally with some lenses and the luxmeter.
I did that, too, taking an XR-E and different lenses of the same diameter but different focal lengths. Result: With a shorter focal length the image of the die was bigger, but not brighter. Having a bigger spot is a good thing, and that's why thrower manufacturers do it (well, and it would be quite a waste of flux otherwise).
With a reflector there's another reason, too: With an XR-E there are virtually no beams at an angle >60° to the optical axis, a deeper reflector has a smaller area left in those dead angles in it's center, thus it increases the effectively used apparent reflector area and thus throw.
Other than that (and especially for lenses), throw is only determined by die luminance and apparent lens area (or apparent effectively used reflector area).
Increasing depth at a fixed diameter will move the outer reflector parts away from the LED (resulting in a tighter beam, as you said), but move the inner parts actually towards the LED, widening the beam.
The LED dome lens creates a magnified virtual image of the die - just put that image into the focus of the 'plain' parabolic reflector. On the other hand, that dome probably induces a few aberrations at higher angles which you might compensate with an adapted reflector...