Stop panicking and relax.
Let the PR case be processed, you will get the visa in due time.
Since your intention is permanent, it is very difficult to get a temporary (study, visit) visa from CHC Islamabad, unless you got millions in the bank.
As an alternate, pick a country where you and your spouse can visit easily, such as Sri Lanka, Malaysia, Dubai, etc to spend time together, or she comes visits and stays with you in Pakistan.
Stop wasting money on applying for visas at CHC, spend it elsewhere where you both are together.
And send only what's been asked in the document checklists.