the algae is just an aesthetic problem really. if you dont like it, just bury the rockwool under enough of the other substrate to cut the light off of it, or just enough so you dont see it, the buried stem will send out roots, which is actually really good for tomato plants, and you can even pinch the stem before you bury it enough to just hear it crunch, that will strengthen the stem, but make sure it still stands up or else it will lignify into a bent position.
id go ahead and stick it outside too, youll get a ton more light, and they dont mind being in the water a lot more deep than what you have, just as long as you have good aeration to the water, aka an airpump with a hefty airstone in that bucket.
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