When you enter the inner portion of a sector, you might see the planets suddonly dissappear and/or move to completely different places. This is because there is a mechanic in the game to simulate solar system planet rotation, so the sectors seem to move around when you stay still. Anyhoo, the planets appear to jump because the game needs to put them in \"place\" based off this rotation mechanic which isnt where they appear to have been when you were outside of these inner sectors when the planets seemed to be static.
As a result, when you jump into these inner sectors and find the planet you were trying to get to and start flying to it, sometimes you might exit the inner secto region, which would cause the planets to jump back to their static locations. This can be very confusing, and IIRC the next update is supposed to address this (Don\'t quite me on that, i just read something to that effect a while ago)
My suggestion is to just fly towards the sun (Not too close obviously) then locate the planet you want and go from there. This will prevent you from accidentally skimming the border between the inner and outer sectors.