Can we amend or file rejoinder to a final stipulation and order in a divorce after the 6 months have passed since it's entered?

That depends upon the specifics. Consult a local lawyer and discuss the issue in detail.

If a pet (dog) is involved in a divorce, and the custodial pet owner ask for "pet alimony" in the settlement?

Sure. Every court needs a good joke.

Legal separation and money acquired before marriage

If it is in a joint account it is presumably marital property - if not it may be separate. Consult a local lawyer and discuss the situation in detail.

I am filling for divorce in CA but my wife is out of country and CA for 5.5 months

If you have lived in California for long enough to meet the residency requirement you can file there whether or not she is currently inside the USA.

Is my husband legal?

If he doesn't have a visa or a green card he's still illegal. This has nothing to do with divorce - which is what you seem to want.

I've been separated from my husband for ten years due to domestic violence 6 months after we got married. We have one child in

You won't have a problem getting a divorce - but he will have to be served with papers - and if he contests the case some appearances are likely....

When I signed final stip. I was unaware of my x attorney slipped something by me

You're supposed to read it before signing. What does your former attorney say?

When you have a disposition date you have a divorce. There may be something wrong with your paperwork...

When a spouse is threatening with order of protection and arrest, does it constitute harassment of 2nd degree or coercion?

Get it on tape. New York is a one party consent state for recording and the recording will be admissible.

During divorce proceedings, can I file a motion to show the judge my wife lied about attempted rape allegations in heraffidavit?

There is no need for such a motion. That having been said you can file anything you want.