It depends on which specific comic arcs you look at. Sometimes they have a happy ending together, but in many cases, external factors or conflicts prevent a lasting union.
In most comic storylines, Wanda and Vision don't end up together permanently. Their relationship is often complicated and subject to various twists and turns.
Wanda and Vision's fate in the comics is quite complex. Generally, they face numerous challenges that make a consistent, long-term togetherness rare.