Can my vegetable plants live in garden soil with a lot on small stones?
Yes, they won't mind, as long as they are small stones. Large stones can impede root growth.
This is in a new raised bed with new soil and mulch.
You will need to get rid of the fungus that they are eating. Once this is gone, they have no food source. Proper watering can also keep them at bay, while they are around.
Your soil is heavily infected with something.
Here are some articles that will help:
https://www.gardeningknowhow.com/garden-how-to/info/using-fungicides-in-garden.htm
https://www.gardeningknowhow.com/special/organic/biofungicide-information.htm
https://www.gardeningknowhow.com/plant-problems/pests/insects/fungus-gnats.htm
I have 3 raised gardens (42" x 42") and I filled them with 50% top soil and 50% compost/manure. There are a lot of small pieces of wood and pebbles in there now. Should I remove anything? I'm growing standard garden veggies and herbs.
It would be more work than it is worth! That stuff won't harm your plants. In fact, leaving some of that wood in there will attract fungi that can help to keep your garden clean. The pebbles will improve drainage.
Of course, larger stones should be removed, as to not impede root growth.
This article will give you more ideas on improving your soil:
https://www.gardeningknowhow.com/garden-how-to/soil-fertilizers/improving-garden-soil.htm
nts. .What are they? The trough is quite deep and do not change the soil every year.
Unfortunately, your photo did not come through. It sounds like the roots of whatever plants went into the compost, though. Usually it should pose no problem.
My yard is very hard. Is there a way to loose up the soil in the yard to plant flowers? What type of tools would I use to dig in hard soil?
If you do not have access to heavy machinery, then a shovel, pick ax, agar, and hoe will come in handy.
Generally, a tiller is the best way to break up your soil, though. Just be sure to add plenty of organic material to the soil. Earthworms will help break up, and keep the soil texture loose. These articles will help:
https://www.gardeningknowhow.com/garden-how-to/soil-fertilizers/improving-garden-soil.htm
https://www.gardeningknowhow.com/special/organic/the-importance-of-soil-for-an-organic-garden.htm
https://www.gardeningknowhow.com/composting/vermicomposting/creating-worm-beds-in-gardens.htm
https://www.gardeningknowhow.com/composting/vermicomposting/benefits-of-garden-worms.htm
https://www.gardeningknowhow.com/garden-how-to/soil-fertilizers/how-to-attract-earthworms.htm
You will want to remove all large debris that cannot break down, and likely amend with organic material. This article will help you to know what garden vegetables require:
https://www.gardeningknowhow.com/edible/vegetables/vgen/vegetable-garden-soil.htm
Here are some articles to help you with soil preparation:
https://www.gardeningknowhow.com/special/organic/the-importance-of-soil-for-an-organic-garden.htm
https://www.gardeningknowhow.com/garden-how-to/soil-fertilizers/improving-garden-soil.htm
My garden soil is really hard . The vegetables I planted started out really well but they seem like they stop growing and plants don't have the shine to them
Hard, compacted soil needs to be loosened with the addition of organic materials such as compost, peat moss, humus, aged manure, etc. Since the area is already planted, you can rake the compost in around your plants. Or, rake them under if you are starting over with the plants. Or, move your plants to containers while you amend your garden soil.
https://www.gardeningknowhow.com/garden-how-to/soil-fertilizers/how-to-improve-clay-soil.htm
https://www.gardeningknowhow.com/garden-how-to/soil-fertilizers/how-to-improve-clay-soil.htm