> 1) How long after my date of arrival will I be able to Leave
> with my PR, and all relevant documentation completed?
What did you mean by "all relevant documentation completed"?
Depend on your definition, the answer will be different.
You can leave Canada with your PR right away (in the same day),
but you either must give a Canada address (that you trust) to
receive PR Card, or make sure you can enter Canada without PR
Card later, or willing to go through the effort and cost of
applying travel document later.
> 2) Will I be eligible for a refund? where do I apply?
Yes. You can ask about it at landing.
> 3) I applied based on a Provincial Nominee (Manitoba), Do I
> have to arrive there? Does my address have to be Manitoban?
> Will I be a Manitoba Resident?
I think it is save to say that you are expected to show effort
to settle down in Manitoba. Not sure how much power Manitoba
government have in this case nor how likely they will use it,
but it is possible that they can revoke the nomination and cause
the PR revoked as well. But again, I am not sure.
> 4) After How many years as a PR can i start an application
> process for citizenship? Do these years have to be
> consecutive?
You need 3 years living in Canada in the 4 years preceding the
citizenship application. The living years don't have to be
continuous, but all of them need to be not longer than 4 years
before submitting the citizenship application.
> 5) I lived in Manitoba for 7 years prior to applying for my
> immigration, the application process took over 3 years to
> finalize. How many of the years that I spent in Canada, will
> be counted towards my Citizenship application.
All the days you want to count toward citizenship need to be in
those 4 years period preceding the citizenship application. The
days before PR is counted as half: each 2 days as non PR living
in Canada counted as 1 day for the citizenship application.
Sorry, cannot give exact answer without exact dates of the time
you live in Canada.

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(Stephan Paul) Arif Sahari Wibowo
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Disclaimer: IANAL, IANALP, IANAMD, IANAMP, IANAAP
my statements - if any - should be treated as such.