Horde of mice descends on an obscure village signalling onset if epidemics. Effect of this epidemics in time and space was far restricted in comparison to the ominous impact of Mughal Rule that was destined to obliterate an ancient culture. Why had rodents failed in foretelling the misfortunes of a tormenting dynasty? Textile factories are brought under administrative control of Mughals leaving their hereditary owners disgruntled. Looming financial ruin forces Maqdoom into exile. His young daughter Intisar is left orphaned. Prince Salim, the heir to Mughal throne and jilted lover of Mehar-Un-Nisa exploited her because in a rare coincidence, colour of her eyes was exactly similar to colour of Mehar-Un-Nisa's eyes. Sarju is under trial for killing an officer of Agra Kotwali. Affluent Jain businessman Virji Seth was summoned by Salim to finance his army in rebellion against his father Akbar. His most loyal colleagues were killed by Salim. There were many who looked for an opportunity to avenge their miseries against Mughal Sultanate but the Sultanate was too powerful to be defeated by a handful of frustrated individuals. Spanning over three generations 'Mughal Square' is the story of individual valour against oppression of Sultanate. In a battle which they are destined to lose they are bound by love, loyalty, and lust; and are separated by deceit, conspiracy, greed and power.