Database Ingegrity Constraint when trying to sync

I installed configuration manager and started tracking files. I pushed them with git to another server, and they were pulled and loaded into activestore fine.
However, the next time we tried to do it, it gave us a database integrity error:

PDOException: SQLSTATE[23000]: Integrity constraint violation: 1062 Duplicate entry '' for key 'PRIMARY': INSERT INTO {node_type} (type, name, base, has_title, title_label, description, help, custom, modified, locked, disabled, module, orig_type) VALUES (:db_insert_placeholder_0, :db_insert_placeholder_1, :db_insert_placeholder_2, :db_insert_placeholder_3, :db_insert_placeholder_4, :db_insert_placeholder_5, :db_insert_placeholder_6, :db_insert_placeholder_7, :db_insert_placeholder_8, :db_insert_placeholder_9, :db_insert_placeholder_10, :db_insert_placeholder_11, :db_insert_placeholder_12); Array ( [:db_insert_placeholder_0] => [:db_insert_placeholder_1] => [:db_insert_placeholder_2] => node_content [:db_insert_placeholder_3] => 0 [:db_insert_placeholder_4] => [:db_insert_placeholder_5] => [:db_insert_placeholder_6] => [:db_insert_placeholder_7] => 1 [:db_insert_placeholder_8] => 1 [:db_insert_placeholder_9] => 0 [:db_insert_placeholder_10] => 0 [:db_insert_placeholder_11] => node [:db_insert_placeholder_12] => ) in node_type_save() (line 561 of/vagrant/www/modules/node/node.module).

Why is this happening and how can we fix it?