> Is it better to create multi databases or create multi schemas?

You're missing one option imho: One database, one schema.

> I am writing a program that can have multi instances.  Sort like a finanical 
> accounting system that can have multiable companies. Where each company has a 
> different name but the tables are an exact match to each other.

Then you could simply add a "company-id" column to every table (and make this 
column part of the primary key of each table). And if you run multiple 
instances of the program within _one_ company, then you can also add an 
"instance-id" column (and make this column also part of the primary key of each 
table).

Sincerely,

Wolfgang

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