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What are canker sores? Canker sores (also called aphthous ulcers) are different than fever blisters. They are small, red or white, shallow ulcers occurring on the tongue, soft palate, or inside the lips and cheeks; they do not occur in the roof of the mouth or the gums. They are quite painful, and usually last 5-10 days.
Bacterial and viral infection: there may be pain and soreness in upper palate due to many infective ailments, such as streptococcal sore throat, tonsillitis, common cold, sinusitis etc. Once the infection is controlled the pain and soreness felt in roof of the mouth fades away. There are several other reasons for pain in roof of mouth; you may hurt the roof of mouth while eating food having sharp edges, tooth infection, oral thrush, poorly fitting dentures etc.