Found a script for Bitwig studio, which allows to use MkII without Automap.
Here's the forum page on kvraudio for discussion -
http://www.kvraudio.com/forum/viewtopic.php?p=6003781
And a link to the page where everyone can download the script -
http://www.mossgrabers.de/Software/Bitwig/Bitwig.html
In author's video about using the script, only port 2 is used for midi in and out of MkII's control section.
I must say that he have a different view on how should controller be mapped, but I really like the layout that he made here.
The Automap button isn't lit, so I assume that he's using ableton template for the script.
https://www.youtube.com/watch?v=g-07hKTv4Dg
Also Wiki page about layout settings -
https://github.com/git-moss/SLMkII4Bitwig/wiki