Most of the charges are nothing to do with FFP.
Sorry I think you've misunderstood this case.
There are 5 allegations:
1) City's sponsorship deals with Etisalat and Etihad were paid for by Seik Mansour and are therefore equity investment by the owner, and City’s revenue is therefore less. These deals run until 2018.
2) Toure and Mancini were secretly paid more than stated in the accounts, via third parties, therefore City's costs are higher. The Toure deal ran until 2015.
These two allegations combined affects the profit and loss. Therefore, according to the Premier League this means City have gained a sporting advantage as follows:
3) City have exceeded UEFA's FFP limit of spending 80% of turnover on player salaries and transfer fees. Therefore this needs to be reassessed. It's up to UEFA to consider this though and take action, not the Premier League.
4) City have breached the £105m loss indicated in rule E59, triggering disciplinary action under section W of the Premier League rules. Rules E52/E53 to E60 form the process around assessing and enforcing PSR.
It's the 4th allegation that is critical because this is where points deductions, stripping of titles expulsion, compensation etc all come from.
If 1 & 2 are proven and neither 3 or 4 occur as a result then no advantage has been gained and it has no bearing on anything, so the whole case is irrelevant.
City can still be punished if 1) and 2) are proven for not acting in "good faith" but if it makes no difference to FFP or PSR then why does it matter at all? It doesn't. A fine is the likely punishment if at all.
Finally, allegation
5) For not cooperating with this stitch up. Punishment for this is likely to be a simple fine.
Section X of the rules covers arbitration, which is the process we're going through, and waiting for the outcome of.
The Premier League statement (required under Section W), could have made all of this a lot clearer. However, it was written in such a way to deliberately obfuscate what they were doing.
In simple terms, two sponsorship deals are being challenged and the wages paid to Manicini and Toure are being queried, and how these affect FFP / PSR calculations.
(Oh yeah, and it's 115 charges so some of them must be true, yadda yadda yadda....)