As far as I know, the freebase can both be taken orally and vaped (if I recall correctly, there was a thread not long ago where someone was asking if THH freebase can be vaped instead of taken orally, ironically).
It's a matter of personal preference whether the freebase or the seeds are better. The freebase is purer, lacking a number of the toxins and other goodies which rue contains- you'll get a purer experience, with less of the rue spirit being involved. The freebase is also a lot more expensive, however- $4 worth of seeds will give you many more journeys than $4 worth of freebase.
Freebase rue harmalas (harmine and harmaline) are going to be much more sedating and dreamy than pure THH, and don't have the same caapi feel or caapi glow to the experience. This is probably the main issue I have with rue, that it puts me to sleep if I'm not careful
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