Once I installed it I found out quickly that if I try to setup any other zone other than my main, it looks like I lose 7.1 capabilities all together.
This is not true, you can do 7.1 + 2 extra zones as long as you provide external amplification. However, I'm not sure you can accomplish everything you want because of the following limitations:
1. the dual HDMI outs are not really intended for multizone function, they are intended for two different displays (e.g. a regular TV and then a PJ for movies) in the same room really. If you just want to take one HDMI output to the bedroom, that will work fine but as you have found there is no amplification for that other room to also have external speakers.
2. HDMI audio will NOT go out to multizone. The only audio that goes out to multizone is analog audio, or 2.0PCM via SPDIF (optical/coax). So you can't distribute HDMI audio to other zones.
3. the receiver has SEVEN amps. If you are already using 7.1 in Main Zone, then the external zones require external amplification.
The pool speakers are no big deal, that's a very traditional use of Zone 2/3. You just need any old 2-ch amp (or an old stereo receiver) and then make sure any source you want to pipe outside has either an analog or optical/coax connection for 2-ch audio.
The big problem is the bedroom system -- does the TV in the bedroom have an audio output? If so, since it's only two channel, you could run the HDMI to the TV, and then output RCA audio from the "audio out" of the TV to a 2-ch amp which will power the in-wall speakers.