Multiwavelength surveys covering large sky volumes are necessary to obtain an accurate census of rare objects such as high-luminosity and/or high-redshift active galactic nuclei (AGNs). Stripe 82X is a 31.3 X-ray survey with Chandra and XMM-Newton observations overlapping the legacy Sloan Digital Sky Survey Stripe 82 field, which has a rich investment of multiwavelength coverage from the ultraviolet to the radio. The wide-area nature of this survey presents new challenges for photometric redshifts for AGNs compared to previous work on narrow-deep fields because it probes different populations of objects that need to be identified and represented in the library of templates. Here we present an updated X-ray plus multiwavelength matched catalog, including Spitzer counterparts, and estimated photometric redshifts for 5961 (96% of a total of 6181) X-ray sources that have a normalized median absolute deviation, {sigma}_nmad_=0.06, and an outlier fraction, {eta}=13.7%. The populations found in this survey and the template libraries used for photometric redshifts provide important guiding principles for upcoming large-area surveys such as eROSITA and 3XMM (in X-ray) and the Large Synoptic Survey Telescope (optical).