I could be doing something wrong but my Bard just gained magical secrets yet the builder does not allow me to select none Bard spells to add to my spell roster.  With the college of lore Bard I should be able under the manage spell option to pick any spell from any class and add it to my spells known.  The game only allows me to select Bard spells.  

I did go in under notes and other and write magical secrets down and typed in the spells known but it seems magical secrets selection should be a part of the spell selection process.

You need to select the spells from the builder.