That letter is standard procedure letting you know they have finished with your fingerprint cards and you have the option of picking them up or they will be destroyed. Nothing to worry about.
If your permit is taking longer than 45 days, here's some info from the
Virginia Citizens Defense League :
"A VCDL supported law went into effect on July 1st, 2004 which provides that if the court has not issued or denied the permit within 45 days of the date of receipt noted on the application, the clerk shall certify on the application that the 45-day period has expired, and send a copy of the certified application to the applicant. The certified application shall serve as a de facto permit, which shall expire 90 days after issuance, and shall be recognized as a valid concealed handgun permit when presented with a valid government-issued photo identification.
If you are having a problem with getting your permit or de facto permit, the Circuit Courts in Virginia are supervised by the Chief Justice of the Virginia Supreme Court and he has expressed concerns about the way the various Circuit Courts have been flagrantly violating the law. It is strongly suggested that you complain directly to him. Be polite and provide as much detail as possible - names, dates, comments made by officials, documents provided by officials, etc.:
Chief Justice
Supreme Court of Virginia
100 North Ninth Street, Fifth Floor
Richmond, VA 23219
"
BTW - Since you live in VA you should consider joining the VCDL. They make positive VA gun law changes happen! Check them out.