Do you believe starting an elimination diet and incorporating more probiotics into my diet would be the best way to try to get my Gut Biome back into balance?

There are many people who have followed the protocol and have felt completely differently. In addition, you now are aware of what you are dealing with. The body is a wonderful machine that is quite forgiving, especially when we may have put it through so much, it has an extraordinary ability to heal when given the opportunity and the right tools.

As far as what you can do, I would follow the report in this order:

1. Foods and drinks: do an elimination diet for 4 - 8 weeks at least. Where you would like to reintroduce foods you were once intolerant to you can do so one at a time and wait for a reaction which can take between 1 - 3 days.
2. Vitamins, minerals, and fatty acids: rebalance these and eat more of the foods which contain a higher amount of the ones you are deficient in, or if in the case you need to take a supplement then this is also an option.
3. Reduce poisons and toxins (as above in the first questions) which can lead to candida overgrowing, we all need certain amounts of candida however too much causes candida to "mop up" the toxins and can then result in uncomfortable symptoms such as congestion, digestive issues, arthritis, and pain.
4. Take a probiotic strain with the ones you may be lacking in.

This process should take around 4 - 8 weeks. Once you have completed the phase you can feel a whole lot better which then gives you the encouragement to carry on. Remember that cells can grow, die, and then shed in as little as 8 weeks and as such you can be in a completely different position in that time.