...as suggested by kawasakizx10rr in the thread about how slow it is, go into your .../cryptic/Star Trek Online/Live/Cache file, delete everything there and then try again. It changed my patcher from reporting 80meg/138 patched and crawling in the trasnfer. Instead it reported 10meg or 38 patched, and it transfered the needed files in about a minute.
It worked for me. Might work for you
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