[Table] Fix copyWithLatestSchema option drop after table was opened

[ArnavBalyan]

Purpose

• copyWithLatestSchema overwrites the latest schema options with the old handle options
• Options committed via ALTER TABLE after the table was opened are silently dropped
• Ensure that correct schema options are used when schema is refreshed via copyWithLatestSchema.
• Closes user reported bug [Bug] function copyWithLatestSchema() is not correct #4957

Tests

• UT

[ArnavBalyan]

cc @JingsongLi thanks! :)