Fever with joint pains is seen in viral fevers (especially Chickungunya), typhoid, SLE, rheumatoid arthritis, Polyarteritis nodosa (PAN) and other auto immune disorders. Localized infection of
inflammation of joints
can also cause fever and joint pains.
A cyclic pattern of fever is seen in EBV or infectious mononeucleosis, malaria, autoimmune disorders like rheumatoid arthritis, SLE, otitis media, endocarditis, IBS, STDs and cancers.