Its very unlikely that "pathogen" is causing your trouble.
How do you debug such?
a) run vim without any plugin support like this: vim -u NONE -U NONE -N "$@"
If the problem is gone its caused by any of the plugins you're using
b) how to find which plugin is causing it ?
Move plugins to a different place, piecewise.
Restart Vim, retry
pathogen#infect should only activate the packages which are in those
runtimepaths
Doing this "bisecting" manually is awkward which is why I just wrote
plugin bisecting for VAM (the plugin manager I support).
See
https://github.com/MarcWeber/vim-addon-manager/commit/436dbe9f99ffc2dc68938162ca41dd7194af6d18
Then finding out the cause is easy: Just run :VAMBisect
and redo your tests for each set of plugins.
Marc Weber
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