I have been through this many times too with my daughter and it is a pain, sometimes frightening. For the medicine I agree with everything that the RN student, Crystal, said. The smallest amount of something to mix with. Important to try to not have any dyes in there as well so go through a compounding pharmacy if you need to as they are very good about that and know all about children and problem meds. Go to http://www.tacanow.org/resources/default.htm and select Medical - Labs / Compounding Pharmacies from the left side.
Probiotics - have you incorporated those into her diet. Important.
Vaccinations - DO NOT HAVE ANY SHOTS when you are sick, have recently been on a round of antibiotics, have taken Tylenol. Please make sure YOU have done the research on vaccinations for YOUR child. The AAP recommended schedule of shots for children is too many, too soon. Here are sites and books that I always recommend for people to start their research:
The Vaccine Book, by Dr. Robert Sears
What Your Doctor May Not Tell You About Childhood Vaccinations, by Dr. Stephanie Cave
Evidence of Harm, by David Kirby
Healing the New Childhood Epidemics: Autism, ADHD, Asthma, and Allergies: The Groundbreaking Program for the 4-A Disorders, by Dr. Kenneth Bock