You can see what face it's using with the function below.  That might give some 
clues.

-Ivan

(defun fontification-at-point (p)
  (interactive "d")
  (sit-for 0)
  (message "Text properties: %s\nOverlays: %s"
           (text-properties-at p)
           (map 'list
                (lambda (ov)
                  (overlay-properties ov))
                (overlays-at p))))

> On Aug 14, 2018, at 2:20 PM, Arash Esbati <[email protected]> wrote:
> 
> "Kourosh Kalayeh" <[email protected]> writes:
> 
>> I disabled my loaded theme but the issue persists.  Any other
>> suggestion?
> 
> No, not really.  I think it is time to get into debugging.  My
> suggestion is to update your AUCTeX to latest version from ELPA.  Then
> do `M-x list-load-path-shadows RET' and check that you don't have
> multiple installations.  Then start Emacs from a shell with
> 
>    emacs -q &
> 
> and in scratch buffer, insert
> 
>    (package-initialize)
> 
> place the cursor after ) and hit `C-x C-e'.  Then load you .tex file and
> try it again.  Updating your Emacs might also help.
> 
> Best, Arash
> 
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