I'm using i18n and submodules to translate an English Language site to Spanish. I'm also using Automatic path aliases.
The issue is that menu links are directly to the node:
node/42. When in the Spanish part of the site,
/es/ the links take me to
es/node/42, not to the aliased url.
The best answer I've seen is this "Afterwards, you can arrange your menu links as you need them. I use parent/child URL aliases based on menu hierarchy, so I make a mirror menu tree." I don't know what he means, but it sounds like what I'm trying to do.