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I would simply plant over them once the foliage has faded away. As long as you don't plant too deeply, and these plants don't require deep planting anyway, your bulbs should be fine. If you are worried about them, you could also choose to plant your veggies in an area near your bulbs rather than right over top of them.

If they are in containers, you should water daily. If they are in the ground, they need 2-4" of water a week.

This article will help with some hanging basket suggestions:
https://www.gardeningknowhow.com/special/containers/hanging-basket-plants.htm

If you will be storing them, wrap them in newspaper to store in the garage. But I do want to let you know that if they are spring blooming bulbs that you would normally plant in the fall, they can be planted in the ground until the ground freezes.

These articles should help:
https://www.gardeningknowhow.com/ornamental/bulbs/bgen/is-it-too-late-to-plant-bulbs-when-to-plant-bulbs.htm
https://www.gardeningknowhow.com/ornamental/bulbs/bgen/how-to-store-bulbs-that-have-sprouted.htm

Either option will work, but keep in mind that when storing your bulbs for next season, this may vary depending on where you are located. Here is an article or two that you may find helpful: https://www.gardeningknowhow.com/ornamental/bulbs/bgen/preparing-bulbs-for-winter-how-to-store-bulbs-for-winter.htm
https://www.gardeningknowhow.com/ornamental/bulbs/bgen/storing-bulbs-in-south.htm

You do not have to remove any of the roots from plants, just clean them off and dry them prior to storage. New bulbs, from the garden center, for example, typically have not formed roots yet. This is why you don't see them with roots.