Once they were gone, the pet smell in the carpet and the damage to the wooden floors was very noticeable.  

That's the point of an LLC.I thought you did an awesome job based on the results. 6 1/2 months may be valid based on the extent of the damage (which sounded substantial) and surprise repairs you encountered.

You can obviously search Google, but a method I've used before in addition to my network is to visit construction suppliers (companies like ORCO Block) who supply builders with construction materials.

In addition to summary process (eviction) cases, the courts’ jurisdiction includes small claims cases, consumer protection cases, and civil actions involving the health, safety, or welfare of the occupants or owners of residential housing, including cases with personal injury, property damage, breach of contract, and discrimination claims."

But I'm always caulking them, and they lead to water and mold damage behind the shower surround. 

First of all you must accept that this is a business of evictions, damages, fires, tenants not paying rent, and more.

But you are in San Fran and perhaps dealing with different tenants.Perhaps start with explaining WHY the damage occurred (their failure to clean), specify that they must clean in the future, and tell them they are responsible for the bill.

I can replace a damage laminate countertop for under $200 myself, while damaged granite would cost $1,000+ and need professional repair/installation.

They have also removed all of the areas that sustained water damage on the second floor as well.

(low maintenance, drought tolerant, durable, does not attract bugs, less likely to be damaged by digging, and is not easy to steal or throw!)