BE CAREFUL WHAT YOU WISH FOR!!! I know you hurt from the sitch you are in but when a spouse has an affair there is surely a whole new range of emotions that consume you.
Yes I think flowers would be nice. Nothing too fancy so she won't yell about spending too much money but not the bouquet from the airport shop either! With a sweet note that is real so that means you can't write missed you or glad you are home but you could write glad your trip was safe. I'd suggest a hug or light kiss if the opportunity is there but be carefull to as she might be expecting that and be ready to evade!