Hello. I have quite a similar issue when I edit posts. Features from the Visual Editor, assumed to open a floating pane, like "Add Media" or "Insert/Edit Link" are not working anymore when Akismet is enabled. Others, like "Bold" or "Indent" still work fine.
I have this issue with Chrome and IE (both up-to-date)
I tried to clean my cache after switching from my theme to Twenty Fourteen, but it didn't some solve my issue. I tried also to upgrade Akismet from 3.0.0. to 3.0.1 but without more success :(
I also defined CONCATENATE_SCRIPTS = False as suggested but it didn't help.
I have tried to add "define('SCRIPT_DEBUG', true);" but it didn't solve anything either.
I am running WP 3.8.2, the latest version packaged by Synology for my NAS.
I couldn't survive without Akismet! So, I don't keep it disabled. But it's really frustrating.