One of the few problems I have with Janus, the vim settings bundle/plugin/whatever you want to call it, is that whenever I change to the vim window it refreshes the NERDTree. My project has a ton of files in it (like really, a ridiculous amount) so that refresh takes tens of seconds sometimes. Thanks to Tim Tyrrell's (@timtyrrell) tip on twitter after I bitched about it, I found the offending lines in Janus's NERDTree plugin:
#~/.vim/janus/vim/tools/janus/after/plugin/nerdtree.vim
augroup AuNERDTreeCmd
autocmd AuNERDTreeCmd VimEnter * call s:CdIfDirectory(expand("<amatch>"))
autocmd AuNERDTreeCmd FocusGained * call s:UpdateNERDTree()
By adding the following line to your ~/.vimrc.after
or ~/.gvimrc.after
you can punt on the autocommands from Janus (I don't care about either of them)
:autocmd! AuNERDTreeCmd