I've also noticed my milestones do not display correctly in the career page when I first launch the game. They all show 0/whatever but if I click on one of the categories such as campaign, it shows the missions as being completed therein.
I've found that if I complete an arcade game of sufficient length to earn credits, once the game is complete my credits and crafting parts will show up once again at the top right and the milestones display properly in the career page. The option to go to the crates screen remains missing though, with the "Some online features are currently unavailable" message. In the collection screen if I select a hero I do not own it says "This content is not currently available" where to option to purchase would be. However the next time I load the game the credits\crafting parts disappear again and the milestones show all 0/ again in the career page.
I've tried using the repair function on the game in Origin twice, it does its thing but the problem persists.
DW