I need to know how this divorce (if it happens) will it effect my ILR status and will it effect my Naturalisation application which I was about to file...? Will it also effect on the duration of me obtaining the British Passport.
A divorce will not effect your indefinite leave to remain. Once you possess ILR, you possess it in your own right â€” i.e. its continuation is not dependent on any status (marital, employment, etc) that you may or may not have, nor is it dependent on "sponsorship" or any such thing. (The only conceivable caveat to that would arise if your marriage was deemed to have been a "sham" marriage contracted for the purpose of immigration. However, based on what you say that is not the case and therefore there is no need to worry about that.)
As a person with ILR, you will be eligible to apply for naturalisation once you fulfil the various requirements, including the residence requirements. In your circumstance, if you are still married
(even if not together) after three years' legal residence, you would be entitled to apply. You would need to supply evidence of your wife's British citizenship though (e.g. her passport), so I'm not sure whether this would be a problem?
After five years' legal residence, you would be in a position to apply regardless of your marital status at that time.
But given your time frames, it might not make much difference in reality?