The success of this visit resulted in his knighthood in Christ Church Cathedral, Dublin on 28 February 1630 and he inherited the post of Auditor General when his father died in 1632.

[4] Following the appointment of Sir Thomas Wentworth, 1st Earl of Strafford as Lord Deputy of Ireland, Ware's political fortunes continued on an upward curve.

In 1638 he obtained, with Sir Philip Perceval, the monopoly of granting licenses for the sale of ale and brandy,[5] a lucrative deal that was no doubt reward for his efforts in making the Irish administration more efficient.

When Wentworth was impeached by the Parliament of England and subsequently executed in May 1641, he managed to avoid prosecution of his close associates, which included John Bramhall, bishop of Derry, Sir George Radcliffe, Lord Chancellor Richard Bolton and Gerard Lowther, Chief Justice of the Irish Common Pleas.

But ultimately he was a royalist in the truest sense in that he did not necessarily share the same political views, or at least approve of Wentworth's style of governing (especially in regards to reforms for the Church of Ireland).

In his free time, he studied in the Bodleian Library and was awarded a doctor of civil law from the University of Oxford in recognition of his scholarly achievements.

He departed Ireland in April 1649 staying primarily at the Protestant stronghold of Caen where Ormonde's influential wife, Elizabeth Butler, was living with her family.

J. H. McMahon, sought to solicit subscriptions to erect a mural table by way of paying tribute to "Ware’s vast merits as a reliable writer of Irish history, and as a real credit to Ireland, and to Dublin, his native city".

[9] Using his father's reputation to enhance his own, he recorded "imaginary conversations and plots, unhappily bedevilling sixteenth-century Irish ecclesiastical history for over 300 years".

"Just as Robert deceived his readers by claiming his forgeries were genuine because they came from his father’s manuscripts, Harris misled his audience by including material that had no connection with James’ investigations.

[16] Ecclesiastical Works Ware's first book, published in 1626, was Archiepiscoporum Cassiliensium & Tuamensium Vitae, an impressive introduction into historical research which traced the archbishop of Cashel and Tuam from the twelfth to seventeenth century.

The episcopal catalogues were a remarkable achievement not only because they shed important light on Ireland's rich history but also because he fused Irish medieval manuscripts and state records to produce a reliable and detailed work.

The work has received widespread attention from Irish historians for Ware's subtle editing of Spenser's political writings as well as its dedication to Lord Deputy Wentworth.

Rich in source material, one of the most striking features was Ware's ability to interconnect medieval Irish manuscripts with European printed works.

The year 1664 saw the publication of Venerabilis Bedae Epistolae Duae and Rerum Hibernicarum Annales ab Anno Domini 1485 ad Annum 1558.