Unexpected Quarantine set on keychains
I suggest going to https://developer.apple.com/support/certificates/ and do a bit of research on certificates. Certs are used to verify the identity of whoever made a program, or owns a website (for encrypted connections). 

At that link you can also find the Apple-supplied root certs you can add to your keychain if you're missing any specific certificate, or have a malicious one. Certs are stored in your keychains. 

* Be sure to keep an eye for a lock or green text in the safari address bar to indicate an encrypted connection! That page will be a target for middle-men! *

The beginning of this year was chaos for certificates. With OS X 10.11 and many many certs expiring, waiting for renew, many hackers took advantage. You may have picked something up, as I know I have and still have it. I have the same issue as you. 

Easiest solution (maybe) is to reinstall. Back up your data, but do NOT use it to restore your account after the reinstall.

Let me know if you need more information.

Also, unless you're actually experiencing problems, stay away from the console. It'll drive you into insanity. The messages are never pleasent. Here are some of mine for example of what (According to apple tier 3 engineers) is normal behavior. If your accounts are having issues, then I would worry about it.

4/7/16 20:59:33.000 kernel[0]: decmpfs.c:579:decmpfs_fast_file_is_compressed: decmpfs_fast_get_state called on unknown file

Apr  3 17:12:06 jahheins-MacBook-Pro kernel[0] : Sandbox: SpotlightNetHelp(302) deny(1) file-read-data /Applications/Safari.app
---- This is a common one. Its due to SIP (System Integrity Protection) Apple seems to be too dumb to tell their programs to stop accessing any program files to a program they've designed to be off-limits.

I also have a lot of kernel crashes. Faulty boot ups, and GPU Issues. Logic board, bat, screen, trackpad, and keyboard were all just replaced and my board is having issues swapping GPUs in the Retina.

Regarding why it was quarantined: Between OS X 10.10 to 10.11 and the SIP changes, any SIP programs or files that are found to be not acting the "rootless" way are instantly quarantined. Usually migration helper is in one of the files and may be the culprit. I've had my airport do the same thing, and ASPD (The key to rootless).