A firmware update is the second thing that should be done to ANY piece of updatable equipment and if Crutchfield had their act together, they would post that on their website or in some communication with you. Hard reset is the first thing to be done. Also, the CI models are really not designed to be sold to end users who aren't familiar with their setup. You're in IT but if you didn't read the manual, it's not just going to tell you how to set it up through some kind of Wizard. CI dealers/integrators do these things immediately upon opening the box and plugging it in. Also, shut everything down, unplug everything, including the power cords (you can leave the speakers connected). Then, make your cable connections. If you're using a power strip, turn it off, plug the power cables in and
then flip the switch on the power strip before turning things on, starting with the receiver.
If you didn't enable Network Standby, do that immediately. Also, you need to read up on HDMI- it's not a user-friendly format. It exists so people are kept from copying Hollywood's precious movies, not so it can be a flawless connection protocol. Also, and unfortunately, HDMI cables have many serious flaws and the re-use of old cables doesn't help. Make sure your cable is free of lint, dust and other debris- it can seriously degrade bandwidth, which is the problem you seem to be having. Also, HDMI cables are meant to bend no mopre than 30 degrees, not 90, not stuffed into a cabinet with the connectors and cables pushing into the back panel.
Monster Cable is overpriced. You need HDMI 1.4 compliant cables and if you have any plans to use 3d format media, it's even more important. High speed HDMI isn't BS- and if you want to future-proof yourself a bit, get High Speed with ethernet cables. If you tried the DVD/BD or cable box without the receiver in the signal path and it worked, you need to change some settings- it's not the receiver's fault. You either have bandwidth or CEC and/or possibly EDID issues.
The reason streaming content sounds good is that it's all converted to PCM- it doesn't remain as MP3, or whatever the original format was in iTunes, etc.
Assuming that all of your sources connect to the receiver and the TV is connected to the HDMI output of the receiver, where is the TV? If it's far from the receiver, make sure the cable is good (continuity testing won't necessarily tell you if it will work) and that it's not pulling down on the jacks. If you're using an HDMI extender, make absolutely sure that the RJ45 connectors are terminated correctly, per the extender's color code. They don't all use 568/570 termination and cable length is critical. If you used a two cable extender (2 Cat5e cables), using cable from two different manufacturers is a good way to have problems. Also, pulling too hard on the cable doesn't help anything. It's not a problem for network (even gigabit networks) unless the cable was stretched badly, the bend radius is exceeded or it's cheap cable but since HDMI transmits at about 10Gb/sec, it is. If you stapled the Cat5e in place, make sure the staples aren't kinking the wire. If you used wire ties, make sure they aren't too tight. It matters.
Also, hold on to your hats, everybody- HDMI 1.5 is coming.

