With the speech recognition thing, there may be a way to disable it outside of DW. The best bet is if you're not planning on using it, don't install it in the first place. Sorry I can't be of more help on that point; I left the speech recognition off and disabled the music with no problems on day 1.
For the bee's nest, check on the 3D view to see if the boat is bottomed out. Patch 1.04 corrected the draft of the FFG, so missions designed for DW 1.0 might have harbors too shallow for the deeper draft of the updated FFG.
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