Should missed Sunnah prayer be made up?
Making up missed voluntary acts of worship is from Sunnah.
Should the Zakah (obligatory charity) giver tell the poor recipient that this is the Zakah of his money?
No, he shouldn`t. But, the Zakah giver should make an intention in his heart that it is the Zakah of his money when paying it to the poor. And Allah Knows Best.
Does swallowing a fly, road dust, or flour dust break the fast?
A fasting person does not break their fast if something enters their body cavity against their will, such as a fly, road dust, or flour dust.
Is supplicating in Qunoot, at times of affliction, during obligatory and voluntary prayer a Sunnah, and should it be done before Rukoo` (bowing), or after it?
At times of affliction, it is a Sunnah that Muslims supplicate in Qunoot after the final Rukoo` of each obligatory, or voluntary prayer as individuals, or in congregation.