The chronicles of those times show that the number of young men, mostly children of Spaniards, who attended the schools of the Dominican fathers was not small; but the difficulty of not being able to receive academic degrees was an obstacle to the progress of the studies. For this reason, Pope Paul V was asked to authorize the order to confer the customary degrees upon the pupils of this college. This permission was granted for ten years, upon the expiration of which time, it was necessary to again apply to the Roman pontiff, then Urban VIII, for the extension of the concession for a similar term of years. This uncertain condition of affairs was not, as is evident, most conducive to progress in these studies, for which reason Felipe IV, desiring to regulate this concession consistently and permanently, requested, through his ambassador, an apostolic brief from the supreme pontiff, Innocent X, in 1645, which should confer upon the college of Santo Tomás (the title) and honors of a university, with all the privileges of those of the same class in the Peninsula, authorizing it to confer academic degrees in the schools of theology and philosophy. Afterwards, in 1734, this concession was extended by Clement XII,[8] also on the petition of the king of Spain, to the schools of canonical and civil law, and to others that might in time be established.

The year following the erection of this university by Innocent X and Felipe IV, its first rector and chancellor, Fray Martin Real de la Cruz, who so distinguished himself in the conversion of the Cagayanes, framed the laws, which continued in force until 1785. The greater part of these were similar to the laws of the university of Mexico, to which his Catholic Majesty desired to conform them, as appears from his letter written on December 20, 1644, to his ambassador at Rome.

In the beginning the only courses were dogmatic and moral theology, philosophy, and the humanities; Latin and Spanish grammar, rhetoric, and poetry were included in the humanities, and the study of all the branches comprised in the works of Santo Tomás de Aquino formed a part of the courses in theology and philosophy.[9] This was the custom in most of the universities existing at that time, a custom that responded perfectly to the necessities of that century, and more particularly to the special requirements of this country at that period. In the first stage of their civilization, education in the Philippines was based exclusively on religion; and the local necessities and the aspirations of the first Spaniards, echoing faithfully the sentiments expressed many times concerning this subject by the Catholic monarchs, demanded a literary center where the bishops and missionaries might find a solution for the many and varied doubts which arose in the exercise of their ministry; where the governors-general might receive ideas of profound and consistent methods of government for the direction of the towns and for their relations with neighboring nations, and where the alcaldes and encomenderos might learn the lessons of Christian charity and justice, which they not infrequently failed to observe. In what a satisfactory manner the university of Santo Tomás fulfilled this duty is shown by the illustrious names of Fathers Berart, Marron, Santa Cruz, Pardo, Sanchez, and the celebrated Father Paz, and many others whom it would take too long to mention, whose brilliant and wise writings contain discussions of all kinds regarding the practical life of these people. It is also shown by the royal decree of 1862, in which his Catholic Majesty, admitting this institution under his protection, says that degrees in theology and letters are given with all strictness and display to qualified persons in those islands, this being of notable utility in that it furnishes subjects capable of filling the offices of curates and prebendaries.

The eighteenth century arrived, and, with the coming of the Bourbon dynasty to the Spanish throne, new germs of civilization took root throughout the monarchy, and were felt as far as these remote shores. Then the faculty of jurisprudence and canonical law was established (the establishment of which the Dominican corporation had endeavored to secure years before), because with the increase of the native and mestizo population, and with the consolidation upon a religious basis of the social life of these peoples, there was not a sufficient number of lawyers for the administration of justice. Lawyers did not come from the Peninsula, and for that reason, if not for other better and more noble reasons, it was necessary to seek them within the bounds of the islands. Hence, faculties of jurisprudence and canonical law were established, with courses in Roman law and institutes and the sacred canons. The pupils could hope for the degree of licentiate in jurisprudence and canonical law after a four years’ course in these studies, and four other years called pasantía years, which were taken in connection with the law course, and were years of practice in the office of some lawyer. During these so-called pasantía years, the pupils were required to defend a proposition every week and sum up the opposing arguments, and were permitted to act as substitutes during the absence of any of the professors of the faculty.

The course of institutes and canonical law was the only course in law given in most of the universities of that period, the professors being charged with making the applications necessary to the Spanish laws and those of the Indias, explaining the points in which they differed from the Roman and canonical laws.

The instruction continued thus during the greater part of the eighteenth century, the university conferring degrees in theology, philosophy, and canonical and Roman law. The courses in moral theology and the humanities were pursued without the formalities of enrolment and without a fixed number of terms, until toward the end of that century. With the increase of the commerce and the intercourse of these islands with Europe, and under the influence of the government of Carlos III, it was decided in the university assembly of 1785, to extend the faculty of theology by the establishment of chairs in literature and sacred writings, and that of law by two additional chairs of canonical and Roman law. It was also decided to create the faculty of medicine, together with a chair of mathematics, applied to commerce and navigation in conformity with the necessities of the times. Father Amador, professor of canonical law, having been appointed to form the new laws, in accordance with the resolution of the assembly, concluded them during the same year, 1785. These laws, after being approved by the superior government of these islands, are now in force except in the points modified by subsequent laws. These laws provided that all professorships, with the exception of those belonging to the private patronage of the Order of St. Dominic, should be conferred by competitive examinations. It also prescribed rules for the conferring of academic degrees by the faculties of theology, canons, law, philosophy, and the new one of medicine, it being provided that, in order to secure the degree of bachelor of theology, canons, civil law, and medicine, it was necessary to have passed in four courses, and for philosophy in three, and that, after having obtained the title of bachelor, it was necessary to exercise the pasantía for four years in the schools of theology and law, and for three years in the other schools. Rules werealso provided for the courses, the enrolments, and the examination fees. These laws were taken to a great extent from those in force in the universities of Salamanca, Mexico, and Lima.

About that time the king of Spain confirmed the privilege of exemption from tribute for all those who had received the degree of bachelor, and also for the pupils of the university, in consideration of “the utility and necessity for this branch of the state to encourage these studies, without which no community can flourish; for, if it should be ordered, contrary to the practice observed up to the present time, that the tribute be paid, the schools would be deserted, to the general injury of these islands.”

Because of the indolence of the times and the lack of pupils, it became necessary to abolish the school of medicine and the class of mathematics and drawing, which were afterwards incorporated by the consulado, and the superior studies continued during the first part of the present century as they existed at the beginning of the eighteenth century. It was not until the year 1836, on the petition of the corporation of St. Dominic, that the chair of Spanish law was created, increasing the faculty of laws.

By a royal order of 1837, continuing the progressive course initiated in the instruction at the university, a commission, presided over by the director of the university, was appointed for the purpose of studying the method of extending the instruction, and making a report upon the manner of filling the chairs which should be created, at the same time preparing a plan of studies, conforming as far as possible with that in force in the Peninsula. The report of this commission was awaiting the decision of the court of appeals when a new royal order of April 2, 1842, provided for the appointment of a new commission, also presided over by the director of the university, and consisting of one associate justice of the royal court of appeals, a prebendary of the cathedral chapter, a member of the municipal council, and one of the economic association, for the purpose of preparing a new plan of studies in harmony with the necessities of the times. The new commission, having worked with great activity, presented its completed report, submitting a plan of laws for this university which included the college of San José, notwithstanding the opposition of its rector, who, as prebendary, formed part of the commission. According to this plan of studies, instruction in theology, philosophy, and jurisprudence was improved, chairs of medicine, pharmacy, and chemistry were created, and that of physics was extended. Upon the submission of this plan of studies to the supreme government of his Majesty, it was provided by another royal order of April 2, 1846, that funds be secured for the establishment of said change in the university, without injuring the interests of anybody, but respecting those existing in so far as possible.

In fulfilment of this decree, on the twenty-sixth of the following August, this superior government appointed another commission, to which was communicated a royal order of April 15, 1847, which appointed, as a member of the same, the rector and chancellor of the university; and another royal order of July 12, of the same year, which directed said commission not to include in the budget of studies “the property of the college of Santo Tomás, as it is the exclusive property of the Dominican fathers.”[10]