An in-depth article on the integrative treatment of Lyme disease recommends:
Fish Oil for countering inflammatory processes

Multi-vitamin/Multi-mineral formula (try Super Supplemental)

Calcium-Magnesium for muscle pain and spasms

Extra Magnesium & Malic Acid - if symptoms are predominantly of a fibromyalgia nature (try Fibralgia)

CoQ10 - to promote mitochondrial energy production

If antibiotics have been used, probiotics are needed to prevent imbalance in the intestinal flora (try Flora Force or Bifidophilus)

Milk thistle can also help prevent potential dysfunction of liver enzymes stemming from antibiotic use

Vitamins B and C are often utilized to enhance immune function

For various cognitive difficulties that manifest, which can fluctuate from day to day and week to week, try Ginkgo biloba and/or Pregnenolone.

In some cases, cognitive abilities improve when sub-clinical hypothyroid problems are addressed.