The average biologist salary at San Jose was $89,289 , which is 38 percent lower than the average salary for this job in California, but 45 percent higher than the national average for this job . Biologist salaries at San Jose typically range from $89,287 to $89,290 (25th to 75th percentile). The highest reported biologist salary was $89,289. There are 2 employees at San Jose with the job title biologist.