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This is not intended to be a definitive statement on this family, but actually a request to others with access to pertinent records for their opinions regarding this family group. From what I've gathered I piece them together as following:
[Mr] Thomas Makghie.
Born at Balmaghie (Kirkcudbright). Minister of North Berwick (East Lothian) 1571, transfered and admitted as minister of Gullane (East Lothian) 1576. Member of Scottish Assembly 1582. Refused to sign Articles drawn up by Secretary Maitland 1585. Member of Scottish Assembly 1586, 1587, & 1590. Alive as late as 1603.
His son~
[Mr] Andrew Makghie.
Born ca 1560, married 4 Jan 1602, died -- Dec 1636.
M.A. Edinburgh University 12 Aug 1591. Admitted as assistant and successor at Dirleton (East Lothian) 1597, and presented to the vicarage 1599 by James VI.
Married Alison Lauder, daughter of Thomas Lauder of Elbottle and Fairlaw (East Lothian), M.P. for North Berwick 1612 & 1617.
His children~ (1) John [see below], (2) Andrew Makghie, M.A. Edinburgh University 20 Jul 1638, minister of Aberlady (East Lothian), (3) Isobel Makghie (ca 1612-1714), wife of Alexander Vernor (ca 1615-1669), M.A. Edinburgh University 23 Jul 1636, schoolmaster of Musselburgh (Midlothian) and minister of Pencaitland (East Lothian), (4) Helen Makghie, wife of Robert Elliot primus, minister of West Linton, (5) Margaret Makghie, (6) Elizabeth Makghie, & (7) Katherine Makghie.
[Mr] John Makghie [son of preceeding].
M.A. Edinburgh University 23 Jul 1625. Tutor to the family of Robert Boyd (1578-1627), second laird of Trochrague. Succeeded his father as minister of Dirleton 17 May 1639. Member of Scottish Assembly 1643-1645. Regimental chaplain to George Ramsay, second Earl of Dalhousie 1647. Member of Scottish Assembly 1648. Examiner at the trial for witchcraft of widow Agnes Clarkson at Dirleton Castle 1649. Author of Three Acts of the Generall Assembly For Promoving [sic] the Knowledge of the Grounds of Salvation and Observing the Rules of Discipline (1652). Described as a sturdy Covenanter and as a non-conformist to episcopacy. Deposed from his appointment at Dirleton by the Bishop of Edinburgh 1682 and replaced with Robert Sinclair 1683.
Married Margaret Haig [who was baptised 14 May 1616 in the Canongate Kirk shortly before her father's imprisonment at the Tolbooth in Canongate], daughter of William Haig (d. 1639), M.A. Edinburgh University 28 Jul 1596, 19th laird of Bemerside (Berwickshire), King's Solicitor and Collector of Burgh Taxes, by his wife Christian Persoun.
His children~ (1) John [see below], (2) Robert Makghie [made apprentice to Patrick Andrew, merchant in Edinburgh 28 Mar 1666], & (3) Helen Makghie, wife of her cousin Robert Elliot secundus, minister of Kinglassie [who disobeyed the Privy Council in Edinburgh and was cautioned in 1684 to not preach or remove from the kingdom].
John Makghie [son of the preceeding].
Baptised at Edinburgh 19 Nov 1633. M.A. Edinburgh University 31 Jul 1662.
Married at Edinburgh 4 May 1669 to Jean Maxwell [possibly the Jean Maxwell baptised at Edinburgh 9 May 1645, daughter of John Maxwell and Helene Black of Canongate (in Edinburgh).
Brought with other Covenanter prisoners from Edinburgh, "Jon. MckGie" and "Jean MkGie" refused the oath of allegiance and refuted his majesty's authority before Lord Gosford 19 May 1685 at Burntisland (Fifeshire), and were imprisoned in the Whigs' Vault at Dunnottar Castle (Aberdeenshire). Many prisoners died while incarcerated there, and it is possible that John Makghie died there after he had again, this time with a written notice, his allegiance to the king's authority. "Jean McGie," Covenanter and prisoner at Dunnottar and Leith, was banished to the Plantations, at Leith (Midlothian) 18 Aug 1685. She was transported from Leith 5 Sep 1685 along with "John McGie" [who I think was her son and not her husband], and taken on the ship Henry and Francis to East Jersey, where they arrived at the Scottish community in Perth Amboy in mid-December of the same year.
John Makghie [son of the preceeding].
Baptised at Edinburgh 1 Sep 1672. Arrived in mid-December 1685 at the Scottish community in Perth Amboy, where his father's second cousin William Haig (d. 1688). William Haig, Surveyor General of East Jersey and an Elizabeth Town Proprietor, had formerly been a merchant residing in Lombard Street in London, and was a younger son of David Haig (d. 1654), 20th laird of Bemerside (Berwickshire), who had been made heir-male to the entailed Bemerside estates by John Mackghie's great-grandfather William Haig (d. 1639).
I believe this last John Makghie to be one and the same with the John Megie who was admitted as an Associate at Elizabeth Town in East Jersey in 1699, and who died there 3 Feb 1735/36. I know there will be grumblings from those who will note that his headstone in the churchyard of the First Presbyterian Church in present-day Elizabeth, New Jersey, has his age recorded as 76 years. But remember headstones are not contemporary sources to a person's birth, and sometimes they are not even contemporary to the individual's death, having been erected sometimes years after the event. The fact that John Megie first appears as being admitted an Associate at Elizabeth Town in 1699 suits his having a birth in 1672 more than one in circa 1659. That also makes him a closer match to his wife Anna whose dates are (1) birth ca 1674, and (2) death 3 Jun 1735.
I am not trying to say that this is at all a definite identification, but it seems to match the extant evidence nicely. I would appreciate hearing from anyone trying to piece together the MacGhie families [with all variant spellings] in Scotland in the 1500s and 1600s. Especially interested in Hew McGhie, minister at Balmaghie, and John McGie/McKie, bookbinder of Edinburgh, who were contemporary to the Makghies listed above [1600s].
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