Custom field values are not importing with Features
To clarify, the custom fields of nodes that reference to Taxonomy elements did not export/import via features. The reason is that Taxonomy term references(tid) are stored by ID instead of UUID with stable version of uuid_features and uuid as of Feb, 2014

The solution was to use dev version 7.x-1.x-dev for uuid as well as uuid_feature module. This will export/import custom fields (term reference) into UUID instead ID that solved the problem