What are loginTokens used for?
Looking at my test system, for the test user the database now contains 16 loginTokens in the resume section.
http://docs.meteor.com/#/full/accounts_config see loginExpirationInDays which will influence the removal of those tokens. They are all quite recent so I assume they are still valid.
Try to debug the loginExpirationInDays value and change it to see the results. See also this pull request: https://github.com/meteor/meteor/pull/1039