Hi thanks for contacting HCM.... Typhoid can affect muscles.... And if diarrhea and less nutrition there there could be lost electrolyte that can lead muscular pain.... Complete antibiotic course.... If still bacteria positive in stool culture and if resistence suspected to floxacin group antibiotic as in your case azithromycin given.... Meanwhile maintain energy intake by high protein foods like egg white , boiled chicken etc..... Fruits juce given more.... Rest taken.... Take half teaspoon raw apple cider vinegar and mix with honey....then mix this mixture in water ...taken for 4 to 5 days. Small meal with frequent interval taken Fried and non veg less. Take care.