Sindhia remaining in the Deccan, in pursuance of his uncle's plan of managing both countries at once, the ax-Sergeant became very influential in Hindustan, where (jealousies with his Mahratta colleagues excepted) the independent career of George Thomas was the only serious difficulty with which he had to contend.

For the present the two seamen did not come in contact, for Thomas confined his operations to the west and north-west, and found his domestic troubles and the resistance of the various neighbouring tribes sufficient to fully occupy his attention. Scarcely had he patched up a peace with his treacherous employer, and brought affairs in Mewat to something like a settlement, when his momentary quiet was once more disturbed by the intelligence that Appa had committed suicide by drowning himself, and that his son and successor, Vaman Rao, was showing signs of an intention to imitate the conduct of the deceased in its untruthful and unreliable character. With the exception of a brief campaign in the Upper Doab, in which the fortified towns of Shamli and Lakhnaoti had rebelled, Thomas does not appear to have had any active employment until he finally broke with Vaman Rao.

The rebellion of the Governor of Shamli (which Thomas suppressed with vigour) seems to have been connected with the movements of the restless Rohillas of the Najibabad clan, whose chief was now Bhanbu Khan, brother of the late Gholam Kadir, and an exile among the Sikhs since the death of his brother and the destruction of the Fort of Ghausgarh. Profiting by the long-continued absence of Sindhia, he re-opened that correspondence with the Afghans which always formed part of a Mohamadan attempt in Hindustan, and appealed, at the same time, to the avarice of the Sikhs, which had abundantly recovered its temporary repulse by Mirza Najaf in 1779. The grandson of the famous Abdali soon appeared at Peshawar at the head of 33,000 Afghan horse. But the Sikhs and Afghans soon quarrelled; a desperate battle was fought between them at Amritsar, in which, after a futile cannonade, the Sikhs flung themselves upon Zaman's army in the most reckless manner. The aggregate losses were estimated at 35,000 men. The Shah retreated upon Lahor; and the disordered state of the Doab began to be reflected in the only half-subdued conquests of the Viceroy of Audh in Rohilkand.

At this crisis 'Asaf-ud-daulah, the then holder of this title, died at Lucknow, 21st September, 1797, and it was by no means certain that his successor, Vazir 'Ali, would not join in the reviving struggles of his co-religionists. It must be remembered that, in virtue of its subjugation to the Sindhias, the Empire was now regarded as a Hindu power, and that Shia and Sunni might well be expected to join, as against the Mahrattas or the English, however they might afterwards quarrel over the spoil, should success attend their efforts. Furthermore it is to be noted that in this or the following year the Afghans, under Zaman Shah, were known to be advancing again upon Lahor.

This state of things appeared to the then Governor-General of the British possessions sufficiently serious to warrant an active interposition. The calm courage of Sir John Shore, who held a local investigation into what, to most politicians, might have appeared a very unimportant matter namely, whether the heir-apparent was really 'Asaf-ud-daulah's son or not; the grave decision against his claims (the claims of a de facto prince); his deposition and supersession by his eldest uncle, Saadat 'Ali the Second; and Vazir 'Ali's subsequent violence, when, too late to save his throne, he contrived, by the gratuitous murder of Mr. Cherry, the British resident at Benares, to convert his position from that of a political martyr to that of a life-convict, are all amply detailed in the well-known History of Mill, and in the Life of Lord Teignmouth by his son. Shore, at the same time, sent an embassy to Persia under Mahdi 'Ali Khan, the result of which was an invasion of Western Afghanistan and the consequent retirement of the Shah from the Panjab. The events referred to only so far belong to the History of Hindustan, that they are a sort of crepuscular appearance there of British power, and show how the most upright and moderate statesmen of that nation were compelled, from time to time, to make fresh advances into the political sphere of the Empire.

About this time died Takaji Holkar, who had lately ceased to play any part in the politics, either of Hindustan or of the Deccan. He was no relation, by blood, of the great founder of the house of Holkar, Malhar Rao; but he had carried out the traditionary policy of the clan, which may be described in two words hostility to Sindhia, and alliance with any one, Hindu or Musalman, by whom that hostility might be aided. He was succeeded by his illegitimate son Jaswant Rao, afterwards to become famous for his long and obstinate resistance to the British; but for the present only remarkable for the trouble that he soon began to give Daulat Rao Sindhia.

1798. The latter, meanwhile, as though there were no such persons as Afghans or English within the limits of India, was engaging in domestic affairs of the most paltry character. His marriage (1st March) with the daughter of the Ghatgai, Shirji Rao, put him into the hands of that notorious person, whose ambition soon entangled the young chief in the obscure and discreditable series of outrages and of intrigues regarding his uncle's widow, known as the War of the Bais. The cause of these ladies being espoused by Madhoji's old commander, Lakwa Dada, whom the younger Sindhia had, as we have seen, raised to the Lieutenant-Generalship of the Empire, a serious campaign (commenced in May) was the result. Sindhia's army (nominally the army of the Emperor) was under the chief command of Ambaji Inglia, and in 1798 a campaign of some magnitude was undertaken, with very doubtful results.

The ladies first retreated to the camp of the Peshwa's brother, Imrat Rao, but were captured by a treacherous attack ordered by Sindhia's general, and undertaken by M. Drugeon, a French officer, at the head of two regular brigades, during the unguarded hours of a religious festival. This was an overt act of warfare against Sindhia's lawful superior, the Peshwa, in whose protection the ladies were, and threw the Peshwa into the hands of the British and their partizans.

Sindhia, for his part, entered into negotiations with the famous usurper of Mysore, Tippu Sultan, who was the hereditary opponent of the British, and who soon after lost his kingdom and his life before the Mahrattas could decide upon an open espousal of his cause.

1799. The glory of the coming conquerors now began to light up the politics of Hindustan. The Afghans retired from Lahor in January, and were soon discovered to have abandoned their attempts on Hindustan for the present. But it was not known how long it might be before they were once more renewed. The celebrated treaty of "subsidiary alliance" between the British and the Nizam (22nd June, 1799), occupied the jealous attention of Sindhia, who had accommodated matters with the Peshwa, and taken up his quarters at Punah, where his immense material resources rendered him almost paramount. Still more was his jealousy aroused by the knowledge that, as long as the attitude of the Afghans continued to menace the ill-kept peace of the Empire, the British must be of necessity driven to keep watch in that quarter, in proportion, at least, as he, for his part, might be compelled to do so elsewhere. To add to his perplexities, Jaswant Rao Holkar, the hereditary rival of his house, about this time escaped from the captivity of Nagpur. to which Sindhia's influence had consigned him. Thus pressed on all sides, the Minister restored Lakwa Dada to favour, and by his aid quelled a fresh outbreak in the Upper Doab, where Shimbunath, the officer in charge of the Bawani Mahal, had called in the Sikhs in aid of his attempts at independence. Shimbunath was met and repulsed by a Moghul officer, named Ashraf Beg; and, hearing that Perron had sent reinforcements under Captain Smith, retired to the Panjab.