So guitar pro 6 has fucked up again, basically, I've changed the tuning of the guitar and here's what happens, it's set to a half step down on a 7 string and when I hover over the string on the tab it says the correct name but when I put in an open note it goes to a B instead of a B flat, so I tried this with a different tuning, I hover over it and it says G but when I put the open note in, guess what it comes up as a B on the stave and it says B in the bit at the bottom of the screen.

Oh and I should mention I have pressed apply.

How do I fix this?
If I understand the question, I think this means you are pressing the transpose button instead of the tuning button.

So instead of changing the tuning from B to Bb, you are transposing the notes played in B to being played in Bb. So like an open string in B tuning will become fret 1 in Bb tuning etc.

If this isn't what you mean can you clarify?
Random3 Hopefully the screenshot helps (Invalid img) And if that didn't work then I have no clue how to add images
I have to say I have never noticed that. I never knew it had a little indicator at the bottom that tells you what the note is, and I wouldn't notice if the musical notation is wrong because I disable that view and only have the tablature enabled.

Honestly if you are reading the tablature as opposed to the musical notation, and GP6 is playing the correct note regardless of what it says, I would just disable the musical view and read the tab.

I will check when I get home and see if mine is like this. You can try emailing Arobas for support but in my experience they will only ever tell you to reinstall, so I would try that first.
Here's what I think is happening. The note is correct in the tablature but 'incorrect' in the standard musical notation, right?
It's because of the convention of how to notate music for a guitar that is tuned a half step down. On a standard 6 string if you tune down to Eb Ab Db Gb Bb Eb then it gets confusing to notate everything with flats, for instance if you're playing something using open position chords then as a guitarist you're probably still thinking "play E, A, D", etc, you don't want to have to think what would this note/chord be normally in this position and then think what it would be a semi-tone down.
Similarly for a 7 string it's easier to think, "I'm playing a riff based off the open B, then I might move up to C# at the 2nd fret or E at the 5th fret", or whatever, you don't need to be thinking about flatting everything.
So it's nothing to worry about
NSpen1 unless you are trying to analyze the music through music theory, then this makes the musical notation useless... I'm having same issue.
darbmo I HAVE FOUND THE FIX!!! i havent been able to find a fix anywhere online but i ffinally figured it out! Go to score information,  click sheetstyle..., click on System & Staves, make sure that "Capo and shifted tunings have impact standard notation" FIXED! I'm so happy about this, it was making theory analysis impossible 
Woah, old post!
But well done for finding the fix. Though I don't see it makes much difference to theory analysis really, e.g. for the initial example you might have something that looks like it's in B minor, that's how it's displayed in the standard notation and the tab is 0 2 3 , etc ... think of it in B minor, just be aware it's really a half step lower, that would probably be easier than working in Bb minor.
Well I was trying to look at a song that I imported that didn't have a key signature at all when I downloaded it. So trying to figure out the actual key with the standard notation being off a half step. I ended up figuring out the key based on the notes of the guitar itself. Then changing to the correct key in guitar pro didn't change the actual notes but just added accidentals to keep the notes the same. I'd rather be able to visual the key the way it is suppose to be written to see how the music is moving around tonic and not have transpose in my head always. Also it would be easy to lose quality of notes(M, m, A, P)
I see your point, but I'd rather if I'm tuned down a half step for instance, think of something as being in E minor rather than Eb minor, then everything is familiar and it's easy to see how all the notes and chords relate to each other, what the intervals are, etc.