Hey man!
I'm glad you've decided to join us. As for getting your hardware working, first make sure your joystick & pedals are recognized by your operating system (the procedure for this varies depending on your OS). Then get yourself to the main menu of RoF (v.1.022) (This is just after you log in). There is a selection at the bottom of the screen called options. Click that and go to the Controls tab. on the left side of this is a list called "category" go to "plane controls" select this. Scroll down in plane controls until you find the entries for plane control: pitch, plane control: roll, plane control; Yaw, etc. For each one, there will likely be an axis already assigned here so click on that once and then move your joystick in the desired direction to assign the appropriate axis to that function in-game. Rudder pedals can be configured in the same fashion (yaw).
For throttle, go to "engine controls" in the category list and assign "engine control: throttle" in the same fashion. If you have a lot of sliders on your joystick, you may find it helpful to assign further axes to things like "enginescontrol: radiator" (useful for in-line, liquid-cooled planes like the Alb D.Va, Fok D.VII, Pfz D.IIIa, SE.5a & Spad S.XIII). "Enginescontrol: mixture" is also a good slider assignment if your wish to fly rotary-engines aircraft (N.28, Camel, Dr.I, etc). Additionally for rotary-engined planes, I would recommend assigning a joystick button to "EngineBlipSwitch" which will help you land (I even use it in combat frequently) it cuts your engine out while keeping it primed (you pulse your engine on & off with it). This is very useful on a plane with three speeds: fast, medium fast and still-pretty-damn-fast.
There is additional setup required for Track IR if you have it (I don't) which I'm sure someone here can help you with. If you are using padlock, the important key is F8 for padlock enemy. The category "pilot head controls" in the controls options has a long list of configurable viewing options. The "camera controls" category configures external views and "weapons controls" is self-explanatory (remember you need to hit "r" or reload before your guns will fire).
As for cockpit references, go here:
http://riseofflight.com/en/community/usefulmaterials and look on the right side for the refs by Squid (Thanks a TON, Squid!). Everything you need to know about gages and startup procedures are in there. You can also download gigabytes of sexy skins for all your airplanes from this page, along with Pat Wilson's campaign generator (if you wish to try it instead the stock one).
If you continue to experience issues you can go here:
http://riseofflight.com/Forum/viewforum.php?f=353 for answers.
I hope this helps and happy flying,
Fafnir_6