To illustrate: Awakening sales were at sound 506k by the end of 2016 according to Media Create. Add a sliver of digital and you'd get shipments most likely below 550k.
I found the data Chris compiled and added some estimates :
2012 CY {2012.01.02 - 2012.12.30} 015. [3DS] Fire Emblem: Awakening # <SLG> (Nintendo) {2012.04.19} (¥4.571) - 455.268 / 455.268
2013 CY {2012.12.31 - 2013.12.29} 370. [3DS] Fire Emblem: Awakening # <SLG> (Nintendo) {2012.04.19} (¥4.571) - 16.199 / 471.467
2014 CY {2013.12.30 - 2014.12.28} 414. [3DS] Fire Emblem: Awakening # <SLG> (Nintendo) {2012.04.19} (¥4.571) - 10.398 / 481.865
2015 CY {2014.12.29 - 2016.01.03} 325. [3DS] Fire Emblem: Awakening # <SLG> (Nintendo) {2012.04.19} (¥4.571) - 15.559 / 497.424
2016 CY {2016.01.04 - 2017.01.01} 859. [3DS] Fire Emblem: Awakening # <SLG> (Nintendo) {2012.04.19} (¥4.571) - 1.549 / 498.973
2017 CY {2017.01.02 - 2017.12.31} 000. [3DS] Fire Emblem: Awakening # <SLG> (Nintendo) {2012.04.19} (¥4.571) - 186 / 499.159
2016 CY {2016.01.04 - 2017.01.01} 410. [3DS] Fire Emblem: Awakening [Nintendo Selects] <SLG> (Nintendo) {2016.09.15} (¥2.700) - 7.995 / 7.995
2017 CY {2017.01.02 - 2017.12.31} 223. [3DS] Fire Emblem: Awakening [Nintendo Selects] <SLG> (Nintendo) {2016.09.15} (¥2.700) - 19.285 / 27.279
LTD retail sell-through : 526k
estimated shipments (+10% upper bond) : <579k
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2015 CY {2014.12.29 - 2016.01.03} 023. [3DS] Fire Emblem Fates: Birthright <SLG> (Nintendo) {2015.06.25} (¥4.700) - 252.742 / 252.742
2016 CY {2016.01.04 - 2017.01.01} 406. [3DS] Fire Emblem Fates: Birthright <SLG> (Nintendo) {2015.06.25} (¥4.700) - 8.087 / 260.829
2017 CY {2017.01.02 - 2017.12.31} 805. [3DS] Fire Emblem Fates: Birthright <SLG> (Nintendo) {2015.06.25} (¥4.700) - 1.521 / 262.350
2015 CY {2014.12.29 - 2016.01.03} 039. [3DS] Fire Emblem Fates: Conquest <SLG> (Nintendo) {2015.06.25} (¥4.700) - 181.351 / 181.351
2016 CY {2016.01.04 - 2017.01.01} 435. [3DS] Fire Emblem Fates: Conquest <SLG> (Nintendo) {2015.06.25} (¥4.700) - 7.113 / 188.464
2017 CY {2017.01.02 - 2017.12.31} 787. [3DS] Fire Emblem Fates: Conquest <SLG> (Nintendo) {2015.06.25} (¥4.700) - 1.623 / 190.087
2015 CY {2014.12.29 - 2016.01.03} 152. [3DS] Fire Emblem Fates: Special Edition {Fire Emblem Fates: Conquest \ Fire Emblem Fates: Birthright} <SLG> (Nintendo) {2015.06.25} (¥9.250) - 44.893 / 44.893
LTD retail sell-through : 542k
Estimated shipments (+10% upper bond) : <596k
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2019 CY [NSW] Fire Emblem Three Houses : ~292k (Dengeki)
Estimated 2019 shipments (using the same ratio as in Q3) : 513k
--> ahead of Awakening launch aligned, behind Fates (but that one was extremely frontloaded) so yeah it could outsell both entries.