it sounds like you are missing some fundamental concepts of setup. this is important. you should probably read through the EHBG (Electric Helicopter Beginner's Guide).
But, i'll give it a stab here, too. You are describing the differences between "normal" mode and "idle up" mode. this is usually controlled by the switch on the upper-left, top of the radio. it will usually have three positions: normal (all the way away from you), idleup 1 (in the middle) and idleup 2 (all the way toward you).
Note, i'm only familiar with the Mode2 radios used in the U.S. If you are using a Mode1 radio, the concepts are the same. but, the switch may be in a different place--honestly i've never even seen a Mode1 transmitter.
how you program each of these modes is completely up to you. but TYPICALLY normal mode leaves both the throttle and pitch curves programmed in a linear fashion from low to high. in this mode, as you increase the left stick both the speed of the motor AND the blade pitch is increased. in the case of the throttle, from 'Off' up to full 100% throttle; and in the case of pitch from around -4° up to +10° or +12°. you will need a pitch gauge to set the pitch curves.
normal mode is NOT very good for inverted flight because you not only have a -4° pitch in full down position, but in that position your motor is cut off!
for 3D flight you flip into idle up. this can be programmed several different ways. but, one simple way is to set the throttle to 100% across the throttle curve. this way when you flip the switch the motor runs full speed in all stick positions. Your pitch curves should be adjusted so that you have 0° pitch at mid-stick with an equal amount of +/- pitch (10° or 12° each) at the top and bottom. this will necessarily make your normal hover a little higher than midstick, because that is where you have zero pitch. but, flipping, rolling, and inverted maneuvers should behave similarly because the pitch is symmetrical and the power is always the same.
if it ain't broke, break it.