Introduction: Gingivostomatitis is a common, painful pediatric presentation, and yet, few studies are available to guide management. We aimed to describe pediatric emergency physicians’ current practice patterns, with respect to analgesic use in children with acute gingivostomatitis. Methods: A national survey was conducted at all 15 national academic pediatric centres. Electronic surveys were distributed to pediatric emergency physicians using a modified Dillman protocol; non-respondents received paper surveys via post. Data were collected regarding demographics, clinical behaviour, knowledge, perceived barriers and factors that influence practice. Results: Overall response rate was 74% (150/202). Most physicians preferred the combination of acetaminophen and ibuprofen (72%) to either agent alone (ibuprofen 19%, acetaminophen 7%). The preferred second-line analgesics were oral morphine (48%, 72/150) and compounded topical formulas (42%, 64/150). The most commonly cited compounded agent was Benadryl plus Maalox (23%, 35/150). Clinical experience with a medication appeared to be the greatest influence on practice patterns; with 52% (78/149) ‘strongly agreeing’ that this was a factor. The most commonly cited barrier to adequate analgesia was difficulty in administration of topical or oral medication to children. Conclusion: As with many other painful conditions, acetaminophen and ibuprofen are reported to be used most frequently. However, oral morphine and topical compounded agents were also frequently prescribed. Regardless of patient age, physicians preferred oral morphine as a second-line agent to treat pain from severe gingivostomatitis. Future research should focus on determining which analgesic and route (oral or topical) is the most effective and best-tolerated choice.