I am looking for some guidance and expertise with my situation - I am new bee out here!!

My UK Ancestry visa is due to expire in Feb 2015 and I am planning on doing my ILR as I believe (!) I meet the requirements - I say believe with some hesitance as I must honestly confess trying to decipher the UKBA terminology and policy document is a bit daunting.

My situation is as below -
I came to the UK way back Jan 2006 on a 4 year UK Ancestry, as those were the rules back then. But then in 2010 I had to apply for an extension, to which I was given another 5 year UK Ancestry and my bio metrics taken. I have continued to work and live in the UK on this UK Ancestry visa and now that my second term (5 year) is coming to an end in Feb 2015 I would like to settle in the UK permanently as I have a well-established company and client base.
If anyone can look at the details below and advise how I should go about it, It would be a tremendous help.
Regarding continuous stay – I have left the county for around 3-4 weeks every year since 2007, as I go back home to visit my parents (who are elderly now). In all my years (9 in total) I have been out of the country for no more than 4 week in any given year. This time off has always been taken as paid holiday as I accumulated this during the working year – I appreciate this does not have an impact on the 180 day period, but is this seen as a negative as I keep leaving the county for 3-4 weeks every year?
Employment – Since coming to the UK in 2006, I have been employed continuously without any year or months out of work (which is extremely fortunate give the past employment environment in the Financial Sector). In 2011 I setup my own company which meant I had to take a drop in earning personally, but always ensured I paid my NINO and Income Tax on my monthly salary. In 2013 when the company started to do better I was able to take dividends out which increased my savings and personally reserve, but I never upped my salary –Will the UKBA see this as negative, in the sense that I went from being a higher rate tax payer during permanent employment, but then went to a lower rate tax payment due to setting up my own company.
Also, I am quite confused on what paper work to submit with my application? Is a letter from my accountant detailing my company earning, personal earning, PAYE contributions and my P60 for the past year sufficient or do I need get more paper work, if Yes, what would that be?
My wife (who is a dependant on my UK Ancestry) will also be applying with my, she is in full time employment and has been since she graduated back in 2007 (she was on a Student Visa, moved onto the one year work visa and then become my dependant).
I trust you will be able to provide some guidance on what I need to do to progress with this.
Look forward to hearing from you.

Thanks.