I have used bottles to multi-box Eve Online for six months with great success. The newest release of EVE Online:Legion is no longer compatible with bottles created with the install program button in for EVE Online. It does work in Steam. Under bottles the program either hangs or crashes. It seems to hang on the initial installation and crash on subsequent invocations. I have been unable to generate logs to see precisely what is going wrong.
To reproduce the problem simply click the "Install Programs..." button. On the next display, click "EVE Online." Click "Show Programs." You will see the Eve Online is running but the program never displays the window. If you interrupt it by clicking the square and attempt to restart it by clicking the triangle, the program fails and the square turns into a triangle after a few seconds.