Can't step into/break on my code with qt creator - c++

Question

I have created a project in qt creator with multiple subdirs and am deploying/running it on a beaglebone. Compiles fine, deploys fine, etc.
My issue is that when I try to debug, the only files I can set breakpoints in or step into are those in the same subdir where main.cpp is. Just to test, I duplicated the project with a flat folder structure and can set breakpoints and step into everything.
When the debugger starts up, the debug log tries to set the breakpoints and fails seemingly because it can't find the .cpp files:
"No source file named projectdir/dir1/myclass.cpp.\n"
8045^done,bkpt={number="1",type="breakpoint",disp="keep",enabled="y",addr="",pending="\"projectdir/dir1/myclass.cpp\":7",times="0",original-location="\"fullpathofprojectdir/dir1/myclass.cpp\":7"}
Whereas it says this for breakpoints in main:
8046^done,bkpt={number="2",type="breakpoint",disp="keep",enabled="y",addr="0x0001831c",func="main(int, char**)",file="projectdir/dir2/main.cpp",fullname="fullpathofprojectdir/dir2/main.cpp",line="27",thread-groups=["i1"],times="0",original-location="fullpathofprojectdir/dir2/main.cpp:27"}
Additionally, myclass.cpp doesn't show up in the source files panes either. How can I resolve this?
Here is the setup of my *.pro files:
Top level project file:
TEMPLATE = subdirs
SUBDIRS += \
dir1 \
dir2
unix {
target.path = /home/debian
INSTALLS += target
}
Project file of library (dir1, myclass.cpp, etc):
QT -= gui
TARGET = Common
TEMPLATE = lib
DEFINES += COMMON_LIBRARY
SOURCES += \
myclass.cpp
HEADERS += \
common_global.h \
myclass.h
unix {
target.path = /home/debian/lib
INSTALLS += target
}
CONFIG += debug
Project file containing main:
QT += core gui
greaterThan(QT_MAJOR_VERSION, 4): QT += widgets
TARGET = Test
TEMPLATE = app
SOURCES += \
main.cpp
win32:CONFIG(release, debug|release): LIBS += -L$$OUT_PWD/../Common/release/
-lCommon
else:win32:CONFIG(debug, debug|release): LIBS += -
L$$OUT_PWD/../Common/debug/ -lCommon
else:unix: LIBS += -L$$OUT_PWD/../Common/ -lCommon
INCLUDEPATH += $$PWD/../Common
DEPENDPATH += $$PWD/../Common
target.path = /home/debian
INSTALLS += target
Let me know if there's any other relevant data I forgot to provide. Qt Creator version is 4.5.0 and I'm running it on a 64 bit VM of ubuntu 16.04 if that's relevant.